PUBLICATIONS
The genomics centre has published in the most prestigious and scientific journals for the entire world. Our goal is to improve the global understanding of infectious diseases and improve healthcare and learning worldwide.
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Leveraging large-scale Mycobacterium tuberculosis whole genome sequence data to characterise drug-resistant mutations using machine learning and statistical …
SS Pruthi, N Billows, J Thorpe, S Campino, JE Phelan, F Mohareb, ...
Scientific Reports 14 (1), 27091, 2024
Association of the humoral immune response with the inflammatory profile in Plasmodium vivax infections in pregnant women
RM Souza, MI Dos Santos, LC Gomes, BBP de Melo, EPM Separovic, ...
PLOS Neglected Tropical Diseases 18 (11), e0012636, 2024
Insights into the use of cytochrome bc1 inhibitors for future therapeutic strategies for tuberculosis
CA Pérez, A Lenaerts, C Villellas, J Guillemont, J Dallow, H Painter, ...
Diversity, functional classification and genotyping of SHV β-lactamases in Klebsiella pneumoniae
KK Tsang, MMC Lam, RR Wick, KL Wyres, M Bachman, S Baker, K Barry, ...
Microbial genomics 10 (10), 001294, 2024
Phenotypic evidence of deltamethrin resistance and identification of selective sweeps in Anopheles mosquitoes on the Bijagós Archipelago, Guinea-Bissau
S Moss, RT Jones, E Pretorius, ET da Silva, M Higgins, M Kristan, ...
Scientific reports 14 (1), 22840, 2024
Whole genome sequence analysis of population structure and insecticide resistance markers in Anopheles melas from the Bijagós Archipelago, Guinea-Bissau
S Moss, E Pretorius, S Ceesay, ET da Silva, H Hutchins, MO Ndiath, ...
Parasites & vectors 17 (1), 396, 2024
Whole genome analysis of Plasmodium malariae identifies reduced susceptibility to pyrimethamine, validated using ortholog replacement in P. knowlesi
A Ibrahim, F Mohring, E Manko, D van Schalkwyk, J Phelan, D Nolder, ...
A Pan Plasmodium lateral flow recombinase polymerase amplification assay for monitoring malaria parasites in vectors and human populations
M Higgins, M Kristan, EL Collins, LA Messenger, JG Dombrowski, ...
Scientific Reports 14 (1), 20165, 2024
Comparisons of genome assembly tools for characterization of Mycobacterium tuberculosis genomes using hybrid sequencing technologies
K Trisakul, Y Hinwan, J Eisiri, K Salao, A Chaiprasert, P Kamolwat, ...
PeerJ 12, e17964, 2024
Whole genome sequencing analysis of Mycobacterium tuberculosis reveals circulating strain types and drug-resistance mutations in the Philippines
L Wang, DR Lim, JE Phelan, LT Reyes, AG Palparan, MGC Sanchez, ...
Scientific Reports 14 (1), 19602, 2024
Exploring the Antimicrobial Resistance Profile of Salmonella typhi and Its Clinical Burden
M Asghar, TA Khan, MN Séraphin, LF Schimke, O Cabral-Marques, ...
Antibiotics 13 (8), 765, 2024
Plasmodium falciparum population dynamics in East Africa and genomic surveillance along the Kenya-Uganda border
A Osborne, E Mańko, H Waweru, A Kaneko, K Kita, S Campino, J Gitaka, ...
Scientific Reports 14 (1), 18051, 2024
Uncovering the genetic diversity in Aedes aegypti insecticide resistance genes through global comparative genomics
A Spadar, E Collins, LA Messenger, TG Clark, S Campino
Scientific Reports 14 (1), 13447, 2024
Large-scale statistical analysis of Mycobacterium tuberculosis genome sequences identifies compensatory mutations associated with multi-drug resistance
N Billows, J Phelan, D Xia, Y Peng, TG Clark, YM Chang
Scientific Reports 14 (1), 12312, 2024
Exploring optimal drug targets through subtractive proteomics analysis and pangenomic insights for tailored drug design in tuberculosis
MF Khan, A Ali, HM Rehman, S Noor Khan, HM Hammad, M Waseem, ...
Scientific Reports 14 (1), 10904, 2024
Genome-wide association study of global Plasmodium vivax populations provides insights into the evolution of drug resistance
T Clark, G Ngwana-Joseph, J Phelan, E Manko, J Dombrowski, ...
Genome-wide population genetics and molecular surveillance of insecticide resistance in Anopheles stephensi mosquitoes from Ethiopia
H Acford-Palmer, F Tadesse, E Manko, J Phelan, M Higgins, A Osborne, ...
Multi-platform whole genome sequencing for tuberculosis clinical and surveillance applications
J Thorpe, W Sawaengdee, D Ward, M Campos, N Wichukchinda, ...
Scientific Reports 14 (1), 5201, 2024
Newly Identified Mycobacterium africanum Lineage 10, Central Africa
C Guyeux, G Senelle, A Le Meur, P Supply, C Gaudin, JE Phelan, ...
Emerging Infectious Diseases 30 (3), 560, 2024
Profiling insecticide resistance phenotypes and genotypes in Aedes aegypti populations across four regions in Puerto Rico
EL Collins, JM Quintana, R Morales, S Moss, H Acford-Palmer, M Higgins, ...
Available at SSRN 4716769, 2024
New reference genomes to distinguish the sympatric malaria parasites, Plasmodium ovale curtisi and Plasmodium ovale wallikeri
M Higgins, E Manko, D Ward, JE Phelan, D Nolder, CJ Sutherland, ...
Scientific Reports 14 (1), 3843, 2024
Genomic analysis of Salmonella enterica from Metropolitan Manila abattoirs and markets reveals insights into circulating virulence and antimicrobial resistance …
JFB Mora, VYB Meclat, AMB Calayag, S Campino, JCR Hafalla, ...
Frontiers in Microbiology 14, 1304283, 2024
Genomic surveillance of Anopheles mosquitoes on the Bijagós Archipelago using custom targeted amplicon sequencing identifies mutations associated with …
S Moss, E Pretorius, S Ceesay, H Hutchins, ET da Silva, MO Ndiath, ...
Parasites & Vectors 17 (1), 10, 2024
A new method for detecting mixed Mycobacterium tuberculosis infection and reconstructing constituent strains provides insights into transmission
B Sobkowiak, P Cudahy, MH Chitwood, TG Clark, C Colijn, L Grandjean, ...
bioRxiv, 2024.04. 26.591283, 2024
Rapid profiling of Plasmodium parasites from genome sequences to assist malaria control
JE Phelan, A Turkiewicz, E Manko, J Thorpe, LN Vanheer, ...
Genome medicine 15 (1), 96, 2023
Detection of insecticide resistance markers in Anopheles funestus from the Democratic Republic of the Congo using a targeted amplicon sequencing panel
H Acford-Palmer, M Campos, J Bandibabone, S N’Do, C Bantuzeko, ...
Scientific Reports 13 (1), 17363, 2023
Mixed infections in genotypic drug-resistant Mycobacterium tuberculosis
L Wang, S Campino, J Phelan, TG Clark
Scientific Reports 13 (1), 17100, 2023
Functional genetic variation in pe/ppe genes contributes to diversity in Mycobacterium tuberculosis lineages and potential interactions with the human host
PJ Gómez-González, AD Grabowska, LD Tientcheu, AG Tsolaki, ...
Frontiers in microbiology 14, 1244319, 2023
Large-scale reference-free analysis of flavivirus sequences in Aedes aegypti whole genome DNA sequencing data
A Spadar, JE Phelan, TG Clark, S Campino
Parasites & vectors 16 (1), 265, 2023
Genomic and functional portrait of multidrug-resistant, hydrogen sulfide (H2S)-producing variants of Escherichia coli
R Mazumder, A Hussain, MM Rahman, JE Phelan, S Campino, ...
Frontiers in Microbiology 14, 1206757, 2023
High throughput human genotyping for variants associated with malarial disease outcomes using custom targeted amplicon sequencing
A Osborne, JE Phelan, LN Vanheer, A Manjurano, J Gitaka, CJ Drakeley, ...
Scientific Reports 13 (1), 12062, 2023
Drug resistance profiling of asymptomatic and low-density Plasmodium falciparum malaria infections on Ngodhe island, Kenya, using custom dual-indexing next …
A Osborne, JE Phelan, A Kaneko, W Kagaya, C Chan, M Ngara, ...
Scientific Reports 13 (1), 11416, 2023
Comparison of in silico predicted Mycobacterium tuberculosis spoligotypes and lineages from whole genome sequencing data
G Napier, D Couvin, G Refrégier, C Guyeux, CJ Meehan, C Sola, ...
Scientific Reports 13 (1), 11368, 2023
Feature weighted models to address lineage dependency in drug-resistance prediction from Mycobacterium tuberculosis genome sequences
N Billows, JE Phelan, D Xia, Y Peng, TG Clark, YM Chang
Bioinformatics 39 (7), btad428, 2023
Application of a targeted amplicon sequencing panel to screen for insecticide resistance mutations in Anopheles darlingi populations from Brazil
H Acford-Palmer, AO Andrade, JE Phelan, RA Santana, SCP Lopes, ...
Case report: A successfully treated case of community-acquired urinary tract infection due to Klebsiella aerogenes in Bangladesh
R Mazumder, A Hussain, B Bhadra, J Phelan, S Campino, TG Clark, ...
Frontiers in Medicine 10, 1206756, 2023
Genome-wide genetic variation and molecular surveillance of drug resistance in Plasmodium falciparum isolates from asymptomatic individuals in …
LN Vanheer, A Mahamar, E Manko, SM Niambele, K Sanogo, A Youssouf, ...
Scientific Reports 13 (1), 9522, 2023
Genome dynamics of high-risk resistant and hypervirulent Klebsiella pneumoniae clones in Dhaka, Bangladesh
A Hussain, R Mazumder, A Ahmed, U Saima, JE Phelan, S Campino, ...
Frontiers in Microbiology 14, 1184196, 2023
Bayesian compositional regression with microbiome features via variational inference
DAV Scott, E Benavente, J Libiseller-Egger, D Fedorov, J Phelan, E Ilina, ...
BMC bioinformatics 24 (1), 210, 2023
Emergence of KPC-3- and OXA-181-producing ST13 and ST17 Klebsiella pneumoniae in Portugal: genomic insights on national and international dissemination
R Elias, A Spadar, APA Hendrickx, RA Bonnin, L Dortet, M Pinto, ...
Journal of Antimicrobial Chemotherapy 78 (5), 1300-1308, 2023
Population dynamics and drug resistance mutations in Plasmodium falciparum on the Bijagós Archipelago, Guinea-Bissau
S Moss, E Mańko, H Vasileva, ET Da Silva, A Goncalves, A Osborne, ...
Scientific reports 13 (1), 6311, 2023
The evolution and transmission dynamics of multidrug-resistant tuberculosis in an isolated high-plateau population of Tibet, China
Q Jiang, HC Liu, QY Liu, JE Phelan, FX Tao, XQ Zhao, J Wang, JR Glynn, ...
Microbiology spectrum 11 (2), e03991-22, 2023
Identification of two insecticide resistance markers in Ethiopian Anopheles stephensi mosquitoes using a multiplex amplicon sequencing assay
H Acford-Palmer, JE Phelan, FG Tadesse, M Kristan, E Collins, A Spadar, ...
Scientific Reports 13 (1), 5612, 2023
Validation and Refinement of Two Interpretable Models for Coronavirus Disease 2019 Prognosis Prediction
K Chang, T Jia, YN Zhou, ZX Shu, JF Liu, J Sun, QG Zheng, HY Tian, ...
World Journal of Traditional Chinese Medicine 9 (2), 191-200, 2023
IFNγ, TNFα polymorphisms and IFNγ serum levels are associated with the clearance of drug-resistant P. falciparum in Malian children
B Kouriba, C Arama, DT Ouologuem, Y Cissoko, M Diakite, AH Beavogui, ...
Cytokine 164, 156137, 2023
JC Polyomavirus T-antigen protein expression and the risk of colorectal cancer: Systematic review and meta-analysis of case-control studies
LJ Kimla, TG Clark, S Banerjee, S Campino
Plos one 18 (3), e0283642, 2023
Risk factors for SARS-CoV-2 infection in primary and secondary school students and staff in England in the 2020/2021 school year: a longitudinal study
P Nguipdop-Djomo, WE Oswald, KE Halliday, S Cook, J Sturgess, ...
International Journal of Infectious Diseases 128, 230-243, 2023
Towards environmental detection, quantification, and molecular characterization of Anopheles stephensi and Aedes aegypti from experimental larval breeding sites
M Kristan, H Acford-Palmer, MO Campos, EL Collins, J Phelan, ...
Scientific Reports 13 (1), 2729, 2023
Bayesian compositional regression with microbiome features via variational inference
S DAV, B ED, J LIBISELLER-EGGER, D FEDOROV, J PHELAN, E ILINA, ...
Population genetic analysis of Plasmodium knowlesi reveals differential selection and exchange events between Borneo and Peninsular sub-populations
A Turkiewicz, E Manko, DR Oresegun, D Nolder, A Spadar, CJ Sutherland, ...
Scientific reports 13 (1), 2142, 2023
Genome-wide host-pathogen analyses reveal genetic interaction points in tuberculosis disease
J Phelan, PJ Gomez-Gonzalez, N Andreu, Y Omae, L Toyo-Oka, H Yanai, ...
Nature communications 14 (1), 549, 2023
Population-based genomic study of Plasmodium vivax malaria in seven Brazilian states and across South America
A Ibrahim, E Manko, JG Dombrowski, M Campos, ED Benavente, ...
The Lancet Regional Health–Americas 18, 2023
Genetic diversity of Plasmodium vivax isolates from pregnant women in the Western Brazilian Amazon: a prospective cohort study
JG Dombrowski, H Acford-Palmer, M Campos, EPM Separovic, ...
The Lancet Regional Health–Americas 18, 2023
Using whole genome sequencing data to identify strain-types, transmission enhancers and novel drug resistance mutations of Mycobacterium tuberculosis
G Napier
London School of Hygiene & Tropical Medicine, 2023
Large-scale genomic analysis of global Klebsiella pneumoniae plasmids reveals multiple simultaneous clusters of carbapenem-resistant hypervirulent strains
A Spadar, J Perdigão, S Campino, TG Clark
Genome medicine 15 (1), 3, 2023
Large-scale genomic analysis of Mycobacterium tuberculosis reveals extent of target and compensatory mutations linked to multi-drug resistant tuberculosis
G Napier, S Campino, JE Phelan, TG Clark
Scientific Reports 13 (1), 623, 2023
TB-ML—a framework for comparing machine learning approaches to predict drug resistance of Mycobacterium tuberculosis
J Libiseller-Egger, L Wang, W Deelder, S Campino, TG Clark, JE Phelan
Bioinformatics advances 3 (1), vbad040, 2023
The exploration of near-extinct indigenous Ghanaian cultural symbols for interior decoration
BK Asinyo
Cogent OA, 2023
Genetic diversity of Plasmodium vivax isolates from pregnant women in the Western Brazilian Amazon: aprospective cohort study
JG Dombrowski, HA Palmer, M Campos, EPM Separovic, S Epiphanio, ...
The Lancet Regional Health. Americas 18, 1-11, 2023
Genetic mutations underlying isoniazid-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan
AS Khan, JE Phelan, MT Khan, S Ali, M Qasim, N Mohammad, G Napier, ...
Tuberculosis 138, 102286, 2023
Combination of virulence and antibiotic resistance: a successful bacterial strategy to survive under hostile environments
A Hussain, R Mazumder, M Asadulghani, TG Clark, D Mondal
Bacterial Survival in the Hostile Environment, 101-117, 2023
Deep learning-derived cardiovascular age shares a genetic basis with other cardiac phenotypes
J Libiseller-Egger, JE Phelan, ZI Attia, ED Benavente, S Campino, ...
Scientific reports 12 (1), 22625, 2022
High clustering rate and genotypic drug-susceptibility screening for the newly recommended anti-tuberculosis drugs among global extensively drug-resistant Mycobacterium …
K Trisakul, D Nonghanphithak, P Chaiyachat, O Kaewprasert, ...
Emerging Microbes & Infections 11 (1), 1857-1866, 2022
A next generation targeted amplicon sequencing method to screen for insecticide resistance mutations in Aedes aegypti populations reveals a rdl mutation in …
EL Collins, JE Phelan, M Hubner, A Spadar, M Campos, D Ward, ...
PLoS neglected tropical diseases 16 (12), e0010935, 2022
Machine learning methods for infectious diseases: applications for tuberculosis and malaria
WA Deelder
London School of Hygiene & Tropical Medicine, 2022
Geographical classification of malaria parasites through applying machine learning to whole genome sequence data
W Deelder, E Manko, JE Phelan, S Campino, L Palla, TG Clark
Scientific reports 12 (1), 21150, 2022
The COVID-19 Schools Infection Survey in England: protocol and participation profile for a prospective observational cohort study
KE Halliday, P Nguipdop-Djomo, WE Oswald, J Sturgess, E Allen, ...
JMIR research protocols 11 (11), e34075, 2022
Non-lactose fermenting Escherichia coli: Following in the footsteps of lactose fermenting E. coli high-risk clones
R Mazumder, A Hussain, JE Phelan, S Campino, SM Haider, A Mahmud, ...
Frontiers in Microbiology 13, 1027494, 2022
Characterizing the impact of primer-template mismatches on recombinase polymerase amplification
M Higgins, OW Stringer, D Ward, JM Andrews, MS Forrest, S Campino, ...
The Journal of molecular diagnostics 24 (11), 1207-1216, 2022
Epidemiology of SARS-CoV-2 infection among staff and students in a cohort of English primary and secondary schools during 2020–2021
JR Hargreaves, SM Langan, WE Oswald, KE Halliday, J Sturgess, ...
The Lancet Regional Health–Europe 21, 2022
Portable sequencing of Mycobacterium tuberculosis for clinical and epidemiological applications
PJ Gómez-González, S Campino, JE Phelan, TG Clark
Briefings in bioinformatics 23 (5), bbac256, 2022
Genomic surveillance of SARS-COV-2 reveals diverse circulating variant lineages in Nairobi and Kiambu Counties, Kenya
JO Kuja, BN Kanoi, RF Balboa, C Shiluli, M Maina, H Waweru, K Gathii, ...
BMC genomics 23 (1), 627, 2022
High-throughput barcoding method for the genetic surveillance of insecticide resistance and species identification in Anopheles gambiae complex malaria vectors
M Campos, J Phelan, A Spadar, E Collins, A Gonçalves, B Pelloquin, ...
Scientific reports 12 (1), 13893, 2022
Genomic epidemiological analysis of Klebsiella pneumoniae from Portuguese hospitals reveals insights into circulating antimicrobial resistance
A Spadar, J Phelan, R Elias, A Modesto, C Caneiras, C Marques, L Lito, ...
Scientific Reports 12 (1), 13791, 2022
Genomic analysis of hypervirulent Klebsiella pneumoniae reveals potential genetic markers for differentiation from classical strains
A Spadar, J Perdigão, S Campino, TG Clark
Scientific Reports 12 (1), 13671, 2022
Sero-epidemiological study of arbovirus infection following the 2015–2016 Zika virus outbreak in Cabo Verde
D Ward, AR Gomes, KKA Tetteh, N Sepúlveda, LF Gomez, S Campino, ...
Scientific Reports 12 (1), 11719, 2022
Molecular characterization of drug-resistant Mycobacterium tuberculosis among Filipino patients derived from the national tuberculosis prevalence survey Philippines 2016
JC Montoya, JCM Malabad, CF Ang, LT Reyes, RP Basilio, DR Lim, ...
Tuberculosis 135, 102211, 2022
How has mass drug administration with dihydroartemisinin-piperaquine impacted molecular markers of drug resistance? A systematic review
S Moss, E Mańko, S Krishna, S Campino, TG Clark, A Last
Malaria journal 21 (1), 186, 2022
A phylogenomic approach for the analysis of colistin resistance-associated genes in Klebsiella pneumoniae, its mutational diversity and implications for phenotypic resistance
R Elias, A Spadar, J Phelan, J Melo-Cristino, L Lito, M Pinto, L Gonçalves, ...
International Journal of Antimicrobial Agents 59 (6), 106581, 2022
De novo assembly of Plasmodium knowlesi genomes from clinical samples explains the counterintuitive intrachromosomal organization of variant SICAvar and kir multiple gene …
DR Oresegun, P Thorpe, ED Benavente, S Campino, F Muh, RW Moon, ...
Frontiers in genetics 13, 855052, 2022
Characterisation of drug-resistant Mycobacterium tuberculosis mutations and transmission in Pakistan
G Napier, AS Khan, A Jabbar, MT Khan, S Ali, M Qasim, N Mohammad, ...
Scientific reports 12 (1), 7703, 2022
COVID-profiler: a webserver for the analysis of SARS-CoV-2 sequencing data
J Phelan, W Deelder, D Ward, S Campino, ML Hibberd, TG Clark
BMC bioinformatics 23 (1), 137, 2022
PowerBacGWAS: a computational pipeline to perform power calculations for bacterial genome-wide association studies
F Coll, T Gouliouris, S Bruchmann, J Phelan, KE Raven, TG Clark, ...
Communications Biology 5 (1), 266, 2022
Shennae O’Boyle 1, 2*, Luis Nacul 1, 3, Flavio E. Nacul4, Kathleen Mudie 1, Caroline C. Kingdon 1, Jacqueline M. Cliff 1, Taane G. Clark 1, 5, Hazel M. Dockrell 1 and Eliana M …
X Jia, HAL Mousa
Current Insights into Complex Post-Infection Fatigue Syndromes with Unknown …, 2022
105 Salivary DNA Loads for Human Herpesviruses 6 and 7 Are Correlated With Disease Phenotype in Myalgic Encephalomyelitis/Chronic Fatigue Syndrome Ji-Sook Lee, Eliana M …
EM Riley, JM Cliff
Current Insights into Complex Post-Infection Fatigue Syndromes with Unknown …, 2022
A natural history of disease framework for improving the prevention, management, and research on post-viral fatigue syndrome and other forms of myalgic encephalomyelitis …
S O'Boyle, L Nacul, FE Nacul, K Mudie, CC Kingdon, JM Cliff, TG Clark, ...
Frontiers in medicine 8, 688159, 2022
A computational method for predicting the most likely evolutionary trajectories in the stepwise accumulation of resistance mutations
RC Eccleston, E Manko, S Campino, TG Clark, N Furnham
bioRxiv, 2022.01. 25.477595, 2022
A modified decision tree approach to improve the prediction and mutation discovery for drug resistance in Mycobacterium tuberculosis
W Deelder, G Napier, S Campino, L Palla, J Phelan, TG Clark
BMC genomics 23 (1), 46, 2022
How hasmass drug administration withdihydroartemisinin-piperaquine impacted molecular markers ofdrug resistance? Asystematic review
S Moss, E Mańko, S Krishna, S Campino, TG Clark, A Last
Probing Differences in Gene Essentiality Between the Human and Animal Adapted Lineages of the Mycobacterium tuberculosis Complex Using TnSeq
AJ Gibson, IJ Passmore, V Faulkner, D Xia, I Nobeli, J Stiens, S Willcocks, ...
Frontiers in veterinary science 8, 760717, 2021
Klebsiella pneumoniae and Colistin Susceptibility Testing: Performance Evaluation for Broth Microdilution, Agar Dilution and Minimum Inhibitory Concentration Test …
R Elias, J Melo-Cristino, L Lito, M Pinto, L Gonçalves, S Campino, ...
Diagnostics 11 (12), 2352, 2021
Whole genome sequencing reveals large deletions and other loss of function mutations in Mycobacterium tuberculosis drug resistance genes
LC Gomes, S Campino, CRF Marinho, TG Clark, JE Phelan
Microbial genomics 7 (12), 000724, 2021
Whole-genome sequencing as a tool for studying the microevolution of drug-resistant serial Mycobacterium tuberculosis isolates
JL do Carmo Guimarães, A von Groll, G Unis, ER Dalla-Costa, ...
Tuberculosis 131, 102137, 2021
Drug resistance profile and clonality of Plasmodium falciparum parasites in Cape Verde: the 2017 malaria outbreak
S Da Veiga Leal, D Ward, S Campino, ED Benavente, A Ibrahim, T Claret, ...
Malaria journal 20, 1-11, 2021
An integrated in silico immuno-genetic analytical platform provides insights into COVID-19 serological and vaccine targets
D Ward, M Higgins, JE Phelan, ML Hibberd, S Campino, TG Clark
Genome medicine 13, 1-12, 2021
Electrochemical Detection of Single-Nucleotide Polymorphism Associated with Rifampicin Resistance in Mycobacterium tuberculosis Using Solid-Phase Primer …
M Ortiz, M Jauset-Rubio, V Skouridou, D Machado, M Viveiros, TG Clark, ...
ACS sensors 6 (12), 4398-4407, 2021
Getting close to nature – Plasmodium knowlesi reference genome sequences from contemporary clinical isolates
DR Oresegun, P Thorpe, ED Benavente, S Campino, F Muh, R Moon, ...
bioRxiv, 2021.11. 16.468780, 2021
Characterizing the genomic variation and population dynamics of Plasmodium falciparum malaria parasites in and around Lake Victoria, Kenya
A Osborne, E Manko, M Takeda, A Kaneko, W Kagaya, C Chan, M Ngara, ...
Scientific Reports 11 (1), 19809, 2021
Genetic diversity of candidate loci linked to Mycobacterium tuberculosis resistance to bedaquiline, delamanid and pretomanid
PJ Gómez-González, J Perdigao, P Gomes, ZM Puyen, D Santos-Lazaro, ...
Scientific reports 11 (1), 19431, 2021
Capturing population differences in rates of vascular aging using a deep learning electrocardiogram algorithm: a cross-sectional study
ED Benavente, F Lopez-Jimenez, O Iakunchykova, S Malyutina, ...
medRxiv, 2021.09. 09.21263337, 2021
Artemether-lumefantrine treatment failure of uncomplicated Plasmodium falciparum malaria in travellers coming from Angola and Mozambique
A Silva-Pinto, J Domingos, M Cardoso, A Reis, ED Benavente, JP Caldas, ...
International Journal of Infectious Diseases 110, 151-154, 2021
Framing the drivers of antimicrobial resistance in Tanzania
A Durrance-Bagale, AS Jung, G Frumence, L Mboera, SE Mshana, ...
Antibiotics 10 (8), 991, 2021
Reply to Collins et al
YM Dong, J Sun, BB Aude Andrée, Q Chen, BY Xu, QQ Liu, Z Sun, ...
Clinical Infectious Diseases 73 (3), 558-559, 2021
Structural and Genomic Insights Into Pyrazinamide Resistance in Mycobacterium tuberculosis Underlie Differences Between Ancient and Modern Lineages
T Tunstall, J Phelan, C Eccleston, TG Clark, N Furnham
Frontiers in molecular biosciences 8, 619403, 2021
Characterization of rifampicin-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan
AS Khan, JE Phelan, MT Khan, S Ali, M Qasim, G Napier, S Campino, ...
Scientific reports 11 (1), 14194, 2021
Flavivirus integrations in Aedes aegypti are limited and highly conserved across samples from different geographic regions unlike integrations in Aedes albopictus
A Spadar, JE Phelan, ED Benavente, M Campos, LF Gomez, F Mohareb, ...
Parasites & vectors 14 (1), 332, 2021
Practices and challenges of veterinary paraprofessionals in regards to antimicrobial use and resistance in animals in Dar Es Salaam, Tanzania
G Frumence, LEG Mboera, C Sindato, A Durrance-Bagale, AS Jung, ...
Antibiotics 10 (6), 733, 2021
Using deep learning to identify recent positive selection in malaria parasite sequence data
W Deelder, ED Benavente, J Phelan, E Manko, S Campino, L Palla, ...
Malaria journal 20 (1), 270, 2021
Policy actors and human and animal health practitioners’ perceptions of antimicrobial use and resistance in Tanzania: A qualitative study
G Frumence, LEG Mboera, BZ Katale, C Sindato, S Kimera, ...
Journal of global antimicrobial resistance 25, 40-47, 2021
Distinctive genetic structure and selection patterns in Plasmodium vivax from South Asia and East Africa
ED Benavente, E Manko, J Phelan, M Campos, D Nolder, D Fernandez, ...
Nature communications 12 (1), 3160, 2021
An inter-laboratory study to investigate the impact of the bioinformatics component on microbiome analysis using mock communities
DM O’Sullivan, RM Doyle, S Temisak, N Redshaw, AS Whale, G Logan, ...
Scientific Reports 11 (1), 10590, 2021
Adverse pregnancy outcomes are associated with Plasmodium vivax malaria in a prospective cohort of women from the Brazilian Amazon
JG Dombrowski, A Barateiro, EPM Peixoto, ABCS Barros, RM Souza, ...
PLoS neglected tropical diseases 15 (4), e0009390, 2021
External validation of a deep learning electrocardiogram algorithm to detect ventricular dysfunction
IZ Attia, AS Tseng, ED Benavente, JR Medina-Inojosa, TG Clark, ...
International journal of cardiology 329, 130-135, 2021
G6PD polymorphisms and hemolysis after antimalarial treatment with low single-dose primaquine: a pooled analysis of six African clinical trials
N Sepúlveda, L Grignard, J Curry, L Mahey, GJH Bastiaens, AB Tiono, ...
Frontiers in genetics 12, 645688, 2021
Methylation analysis of Klebsiella pneumoniae from Portuguese hospitals
A Spadar, J Perdigão, J Phelan, J Charleston, A Modesto, R Elias, ...
Scientific reports 11 (1), 6491, 2021
The governance and implementation of the national action plan on antimicrobial resistance in Tanzania: A qualitative study
G Frumence, LEG Mboera, C Sindato, BZ Katale, S Kimera, E Metta, ...
Antibiotics 10 (3), 273, 2021
Clusters of drug-resistant Mycobacterium tuberculosis detected by whole-genome sequence analysis of nationwide sample, Thailand, 2014–2017
D Nonghanphithak, A Chaiprasert, S Smithtikarn, P Kamolwat, ...
Emerging infectious diseases 27 (3), 813, 2021
Evolutionary trajectories and transmission dynamics of multidrug-resistant Mycobacterium tuberculosis in Tibet, China
Q Jiang, H Liu, Q Liu, JE Phelan, L Shi, M Gao, X Zhao, J Wang, JR Glynn, ...
medRxiv, 2021.02. 19.21252065, 2021
Development and validation of a nomogram for assessing survival in patients with COVID-19 pneumonia
YM Dong, J Sun, YX Li, Q Chen, QQ Liu, Z Sun, R Pang, F Chen, BY Xu, ...
Clinical infectious diseases 72 (4), 652-660, 2021
Drug resistance profile and clonality of Plasmodium falciparum parasites in Cape Verde: The 2017 malaria outbreak
L SdV, D Ward, S Campino, ED Benavente, A Ibrahim, T Andrade, ...
A snapshot of translation in Mycobacterium tuberculosis during exponential growth and nutrient starvation revealed by ribosome profiling
EB Sawyer, JE Phelan, TG Clark, T Cortes
Cell Reports 34 (5), 2021
Studying accelerated cardiovascular ageing in Russian adults through a novel deep-learning ECG biomarker
ED Benavente, F Jimenez-Lopez, ZI Attia, S Malyutina, A Kudryavtsev, ...
F1000Research, 2021
Studying accelerated cardiovascular ageing in Russian adults through a novel deep-learning ECG biomarker
E Diez Benavente, F Jimenez-Lopez, ZI Attia, S Malyutina, A Kudryavtsev, ...
Wellcome Open Research 6, 12, 2021
Studying accelerated cardiovascular ageing in Russian adults through a novel deep-learning ECG biomarker
F Jimenez-Lopez, ZI Attia, S Malyutina, A Kudryavtsev, A Ryabikov, ...
The antimalarial efficacy and mechanism of resistance of the novel chemotype DDD01034957
C Miguel-Blanco, JM Murithi, ED Benavente, F Angrisano, KA Sala, ...
Scientific reports 11 (1), 1888, 2021
Distinctive genetic structure and selection patterns in Plasmodium vivax from South Asia and East Africa. Nat Commun 12: 3160
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Klebsiella pneumoniae and colistin susceptibility testing: performance evaluation for broth microdilution, agar dilution and minimum inhibitory concentration test strips and …
R Elias, J Melo-Cristino, L Lito, M Pinto, L Gonçalves, S Campino, ...
Genetic diversity of candidate loci linked to Mycobacterium tuberculosis resistance to bedaquiline, delamanid and pretomanid. Sci Rep 11: 19431
PJ Gómez-González, J Perdigao, P Gomes, ZM Puyen, D Santos-Lazaro, ...
Klebsiella pneumoniae and Colistin Susceptibility Testing: Performance Evaluation for Broth Microdilution, Agar Dilution and Minimum Inhibitory Concentration Test Strips and …
R Elias, J Melo-Cristino, L Lito, M Pinto, L Gonçalves, S Campino, ...
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Practices and challenges of veterinary paraprofessionals in regards to antimicrobial use and resistance in animals in Dar Es Salaam, Tanzania. Antibiotics. 2021; 10: 733. doi …
G Frumence, LEG Mboera, C Sindato, A Durrance-Bagale, AS Jung, ...
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The governance and implementation of the national action plan on antimicrobial resistance in Tanzania: A qualitative study. Antibiotics. 2021; 10 (3): 273
G Frumence, LEG Mboera, C Sindato, BZ Katale, S Kimera, E Metta, ...
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TRANSFORMING UNDERGRADUATE EDUCATION IN THE SCIENCES AND HUMANITIES WITH VIRTUAL REALITY: THE CASE AT MOREHOUSE COLLEGE (ATLANTA, GA, USA)
T Clark, O Hamilton, M Morris, E Vereen
ICERI2021 Proceedings, 3467-3467, 2021
Author Correction: Characterization of rifampicin-resistant Mycobacterium tuberculosis in Khyber Pakhtunkhwa, Pakistan
AS Khan, JE Phelan, MT Khan, S Ali, M Qasim, G Napier, S Campino, ...
Scientific reports 11, 2021
Genetic diversity of the Plasmodium falciparum GTP-cyclohydrolase 1, dihydrofolate reductase and dihydropteroate synthetase genes reveals new insights into …
A Turkiewicz, E Manko, CJ Sutherland, E Diez Benavente, S Campino, ...
PLoS Genetics 16 (12), e1009268, 2020
Robust detection of point mutations involved in multidrug-resistant Mycobacterium tuberculosis in the presence of co-occurrent resistance markers
J Libiseller-Egger, J Phelan, S Campino, F Mohareb, TG Clark
PLoS Computational Biology 16 (12), e1008518, 2020
Genomic epidemiology of carbapenemase producing Klebsiella pneumoniae strains at a northern Portuguese hospital enables the detection of a misidentified Klebsiella variicola …
J Perdigão, C Caneiras, R Elias, A Modesto, A Spadar, J Phelan, ...
Microorganisms 8 (12), 1986, 2020
Robust barcoding and identification of Mycobacterium tuberculosis lineages for epidemiological and clinical studies
G Napier, S Campino, Y Merid, M Abebe, Y Woldeamanuel, A Aseffa, ...
Genome medicine 12, 1-10, 2020
Knowledge, attitudes and practices regarding antimicrobial use and resistance among communities of Ilala, Kilosa and Kibaha districts of Tanzania
C Sindato, LEG Mboera, BZ Katale, G Frumence, S Kimera, TG Clark, ...
Antimicrobial Resistance & Infection Control 9, 1-17, 2020
Surveillance of Aedes aegypti populations in the city of Praia, Cape Verde: Zika virus infection, insecticide resistance and genetic diversity
M Campos, D Ward, RF Morales, AR Gomes, K Silva, N Sepúlveda, ...
Parasites & Vectors 13, 1-11, 2020
Genetic diversity and risk factors for the transmission of antimicrobial resistance across human, animals and environmental compartments in East Africa: a review
BZ Katale, G Misinzo, SE Mshana, H Chiyangi, S Campino, TG Clark, ...
Antimicrobial Resistance & Infection Control 9, 1-20, 2020
Whole genome sequencing of Mycobacterium tuberculosis isolates and clinical outcomes of patients treated for multidrug-resistant tuberculosis in Tanzania
BZ Katale, PM Mbelele, NA Lema, S Campino, SE Mshana, ...
BMC genomics 21, 1-15, 2020
Bacterial and host determinants of cough aerosol culture positivity in patients with drug-resistant versus drug-susceptible tuberculosis
G Theron, J Limberis, R Venter, L Smith, E Pietersen, A Esmail, ...
Nature medicine 26 (9), 1435-1443, 2020
How myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) progresses: the natural history of ME/CFS
L Nacul, S O'Boyle, L Palla, FE Nacul, K Mudie, CC Kingdon, JM Cliff, ...
Frontiers in neurology 11, 826, 2020
Selective whole genome amplification of Plasmodium malariae DNA from clinical samples reveals insights into population structure
A Ibrahim, E Diez Benavente, D Nolder, S Proux, M Higgins, J Muwanguzi, ...
Scientific Reports 10 (1), 10832, 2020
Differences in the frequency of genetic variants associated with iron imbalance among global populations
MW Jallow, C Cerami, TG Clark, AM Prentice, S Campino
PLoS One 15 (7), e0235141, 2020
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
BioRxiv, 2020.04. 28.066977, 2020
Ribosome profiling in Mycobacterium tuberculosis reveals robust leaderless translation
EB Sawyer, JE Phelan, TG Clark, T Cortes
BioRxiv, 2020.04. 22.055855, 2020
Whole-genome sequencing resolves a polyclonal outbreak by extended-spectrum beta-lactam and carbapenem-resistant Klebsiella pneumoniae in a Portuguese …
J Perdigão, A Modesto, AL Pereira, O Neto, V Matos, A Godinho, J Phelan, ...
Microbial genomics 7 (6), 000349, 2020
Bayesian reconstruction of Mycobacterium tuberculosis transmission networks in a high incidence area over two decades in Malawi reveals associated risk factors …
B Sobkowiak, L Banda, T Mzembe, AC Crampin, JR Glynn, TG Clark
Microbial genomics 6 (4), e000361, 2020
A molecular barcode to inform the geographical origin and transmission dynamics of Plasmodium vivax malaria
E Diez Benavente, M Campos, J Phelan, D Nolder, JG Dombrowski, ...
PLoS genetics 16 (2), e1008576, 2020
Using genomics to understand the origin and dispersion of multidrug and extensively drug resistant tuberculosis in Portugal
J Perdigão, P Gomes, A Miranda, F Maltez, D Machado, C Silva, ...
Scientific reports 10 (1), 2600, 2020
Discordant bioinformatic predictions of antimicrobial resistance from whole-genome sequencing data of bacterial isolates: an inter-laboratory study
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Microbial genomics 6 (2), e000335, 2020
Robust barcoding and identification of Mycobacterium tuberculosis lineages for epidemiological and clinical studies. Genome Med 12: 114
G Napier, S Campino, Y Merid, M Abebe, Y Woldeamanuel, A Aseffa, ...
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How myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) progresses: the natural history of ME/CFS. Front Neurol. 2020; 11: 826
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How Myalgic Encephalomyelitis/Chronic Fatigue Syndrome (ME/CFS) Progresses: The Natural History of ME/CFS. Front Neurol 11, 826
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Ribosome Profiling in
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Genomic evidence supporting the clonal expansion of extensively drug-resistant tuberculosis bacteria belonging to a rare proto-Beijing genotype
P Srilohasin, T Prammananan, K Faksri, JE Phelan, P Suriyaphol, ...
Emerging Microbes & Infections 9 (1), 2632-2641, 2020
Combining structure and genomics to understand antimicrobial resistance
T Tunstall, S Portelli, J Phelan, TG Clark, DB Ascher, N Furnham
Computational and Structural Biotechnology Journal 18, 3377-3394, 2020
Emergence of multidrug-resistant Mycobacterium tuberculosis of the Beijing lineage in Portugal and Guinea-Bissau: a snapshot of moving clones by whole …
J Perdigão, C Silva, F Maltez, D Machado, A Miranda, I Couto, P Rabna, ...
Emerging microbes & infections 9 (1), 1342-1353, 2020
A comprehensive analysis of drug resistance molecular markers and Plasmodium falciparum genetic diversity in two malaria endemic sites in Mali
SAS Diakité, K Traoré, I Sanogo, TG Clark, S Campino, M Sangaré, ...
Malaria journal 18, 1-9, 2019
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, 1-7, 2019
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, 1-15, 2019
SV-Pop: population-based structural variant analysis and visualization
M Ravenhall, S Campino, TG Clark
BMC bioinformatics 20, 1-4, 2019
Bead-based assays to simultaneously detect multiple human inherited blood disorders associated with malaria
L Grignard, C Mair, J Curry, L Mahey, GJH Bastiaens, AB Tiono, J Okebe, ...
Malaria journal 18, 1-9, 2019
Whole genome sequencing of drug resistant Mycobacterium tuberculosis isolates from a high burden tuberculosis region of North West Pakistan.
AJ Abdul Jabbar, JE Phelan, PF Sessions, TA Khan, HR Hazir Rahman, ...
Whole genome sequencing of drug resistant Mycobacterium tuberculosis isolates from a high burden tuberculosis region of North West Pakistan
A Jabbar, JE Phelan, PF de Sessions, TA Khan, H Rahman, SN Khan, ...
Scientific reports 9 (1), 14996, 2019
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
A novel Ancestral Beijing sublineage of Mycobacterium tuberculosis suggests the transition site to Modern Beijing sublineages
P Ajawatanawong, H Yanai, N Smittipat, A Disratthakit, N Yamada, ...
Scientific reports 9 (1), 13718, 2019
How Myalgic encephalomyelitis/Chronic fatigue syndrome (ME/CFS) progresses: A framework for research and the prevention, treatment, and rehabilitation in ME/CFS
L Nacul, S O'Boyle, FE Nacul, K Mudie, CC Kingdon, JM Cliff, TG Clark, ...
Preprints, 2019
The Lancet Respiratory Medicine Commission: 2019 update: epidemiology, pathogenesis, transmission, diagnosis, and management of multidrug-resistant and incurable tuberculosis
K Dheda, T Gumbo, G Maartens, KE Dooley, M Murray, J Furin, ...
The Lancet Respiratory Medicine 7 (9), 820-826, 2019
Clonal expansion across the seas as seen through CPLP-TB database: A joint effort in cataloguing Mycobacterium tuberculosis genetic diversity in Portuguese-speaking countries
J Perdigão, C Silva, J Diniz, C Pereira, D Machado, J Ramos, H Silva, ...
Infection, genetics and evolution 72, 44-58, 2019
Whole genome sequencing of amplified Plasmodium knowlesi DNA from unprocessed blood reveals genetic exchange events between Malaysian Peninsular and …
ED Benavente, AR Gomes, JR De Silva, M Grigg, H Walker, BE Barber, ...
Scientific reports 9 (1), 9873, 2019
Diverticulosis and nine connective tissue disorders: epidemiological support for an association
JB Broad, Z Wu, TG Clark, D Musson, R Jaung, B Arroll, IP Bissett, ...
Connective Tissue Research 60 (4), 389-398, 2019
Mycobacterium tuberculosis whole genome sequencing provides insights into the Manila strain and drug-resistance mutations in the Philippines
JE Phelan, DR Lim, S Mitarai, PF de Sessions, MAA Tujan, LT Reyes, ...
Scientific reports 9 (1), 9305, 2019
Rapid and iterative genome editing in the malaria parasite Plasmodium knowlesi provides new tools for P. vivax research
F Mohring, MN Hart, TA Rawlinson, R Henrici, JA Charleston, ...
Elife 8, e45829, 2019
An analysis of large structural variation in global Plasmodium falciparum isolates identifies a novel duplication of the chloroquine resistance associated gene
M Ravenhall, ED Benavente, CJ Sutherland, DA Baker, S Campino, ...
Scientific reports 9 (1), 8287, 2019
Global variation in anastomosis and end colostomy formation following left-sided colorectal resection
GlobalSurg Collaborative, ...
BJS open 3 (3), 403-414, 2019
A bioinformatic analysis of malaria host and pathogen genomics
M Ravenhall
London School of Hygiene & Tropical Medicine, 2019
Association of malaria infection during pregnancy with head circumference of newborns in the Brazilian Amazon
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JAMA network open 2 (5), e193300-e193300, 2019
Evidence of clinical pathology abnormalities in people with myalgic encephalomyelitis/chronic fatigue syndrome (ME/CFS) from an analytic cross-sectional study
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An integrated whole genome analysis of Mycobacterium tuberculosis reveals insights into relationship between its genome, transcriptome and methylome
PJ Gomez-Gonzalez, N Andreu, JE Phelan, PF de Sessions, JR Glynn, ...
Scientific reports 9 (1), 5204, 2019
Artemisinin resistance-associated markers in Plasmodium falciparum parasites from the China-Myanmar border: predicted structural stability of K13 propeller …
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PLoS One 14 (3), e0213686, 2019
PrimedRPA: primer design for recombinase polymerase amplification assays
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Bioinformatics 35 (4), 682-684, 2019
Genetic Diversity of norA, Coding for a Main Efflux Pump of Staphylococcus aureus
SS Costa, B Sobkowiak, R Parreira, JD Edgeworth, M Viveiros, TG Clark, ...
Frontiers in genetics 9, 710, 2019
Rapid and iterative genome editing in the malaria parasite
F Mohring, MN Hart, TA Rawlinson, R Henrici, JA Charleston, ...
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Whole genome sequencing of drugresistant Mycobacterium tuberculosis isolates from a high burden tuberculosis region of northwest Pakistan. Sci Rep 9: 14996
A Jabbar, JE Phelan, PF de Sessions, TA Khan, H Rahman, SN Khan, ...
An integrated whole genome analysis of Mycobacterium tuberculosis reveals insights into relationship between its genome, transcriptome and methylome. Sci Rep 9: 5204
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Integrating informatics tools and portable sequencing technology for rapid detection of resistance to anti-tuberculous drugs. Genome Med 11: 41
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Identification of Selective Sweeps Through Deep Learning in Whole Genome Sequenced Malaria Parasites
W Deelder, E Benavente, J Phelan, S Campino, L Palla, T Clark
GENETIC EPIDEMIOLOGY 43 (7), 874-874, 2019
Mycobacterium tuberculosis genetic diversity and drug resistance across Portuguese-speaking countries and CPLP-TB: a novel framework and surveillance tool for the Lusophone …
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19th European Congress of Clinical Microbiology and Infectious Diseases …, 2019
A 15-YEAR SPATIOTEMPORAL ANALYSIS OF MYCOBACTERIUM TUBERCULOSIS LINEAGES 1 AND 2 IN CHIANG RAI, THAILAND
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Russian Journal of Infection and Immunity 8 (4), 567, 2018
Identifying mixed Mycobacterium tuberculosis infections from whole genome sequence data
B Sobkowiak, JR Glynn, RMGJ Houben, K Mallard, JE Phelan, ...
BMC genomics 19, 1-15, 2018
Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity
AR Last, H Pickering, C Roberts, F Coll, J Phelan, SE Burr, E Cassama, ...
Genome medicine 10, 1-19, 2018
A forward genetic screen reveals a primary role for Plasmodium falciparum Reticulocyte Binding Protein Homologue 2a and 2b in determining alternative erythrocyte invasion pathways
S Campino, A Marin-Menendez, A Kemp, N Cross, L Drought, TD Otto, ...
PLoS pathogens 14 (11), e1007436, 2018
Hand grip strength as a clinical biomarker for ME/CFS and disease severity
LC Nacul, K Mudie, CC Kingdon, TG Clark, EM Lacerda
Frontiers in neurology 9, 992, 2018
Using whole genome sequence data to study genomic diversity and develop molecular barcodes to profile Plasmodium malaria parasites
E Díez Benavente
London School of Hygiene & Tropical Medicine, 2018
Global genetic diversity of var2csa in Plasmodium falciparum with implications for malaria in pregnancy and vaccine development
ED Benavente, DR Oresegun, PF de Sessions, EM Walker, C Roper, ...
Scientific Reports 8 (1), 15429, 2018
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), 15356, 2018
Global expansion of Mycobacterium tuberculosis lineage 4 shaped by colonial migration and local adaptation
OB Brynildsrud, CS Pepperell, P Suffys, L Grandjean, J Monteserin, ...
Science advances 4 (10), eaat5869, 2018
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
Ndila CM, Uyoga S, Macharia AW, Nyutu G, Peshu N, Ojal J, Shebe M, Awuondo Human candidate gene polymorphisms and risk of severe malaria in children in Kilifi, Kenya: a case …
KJ Kivinen
The lancet. Haematology 8, 2018
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), 11597, 2018
Human candidate gene polymorphisms and risk of severe malaria in children in Kilifi, Kenya: a case-control association study
CM Ndila, S Uyoga, AW Macharia, G Nyutu, N Peshu, J Ojal, M Shebe, ...
The Lancet Haematology 5 (8), e333-e345, 2018
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
Enrichment of clinically relevant organisms in spontaneous preterm-delivered placentas and reagent contamination across all clinical groups in a large pregnancy cohort in the …
LJ Leon, R Doyle, E Diez-Benavente, TG Clark, N Klein, P Stanier, ...
Applied and environmental microbiology 84 (14), e00483-18, 2018
Genomic analysis of a pre-elimination Malaysian Plasmodium vivax population reveals selective pressures and changing transmission dynamics
S Auburn, ED Benavente, O Miotto, RD Pearson, R Amato, MJ Grigg, ...
Nature communications 9 (1), 2585, 2018
Human coronavirus NL63 molecular epidemiology and evolutionary patterns in rural coastal Kenya
PK Kiyuka, CN Agoti, PK Munywoki, R Njeru, A Bett, JR Otieno, GP Otieno, ...
The Journal of infectious diseases 217 (11), 1728-1739, 2018
Use of whole genome sequencing in surveillance of drug resistant tuberculosis
R McNerney, M Zignol, TG Clark
Expert review of anti-infective therapy 16 (5), 433-442, 2018
Genome-wide analysis of multi-and extensively drug-resistant Mycobacterium tuberculosis (vol 50, pg 307, 2018)
F Coll, J Phelan, GA Hill-Cawthorne, MB Nair, K Mallard, S Ali, ...
Nature genetics 50 (5), 764-764, 2018
Frequent Undetected Ward-Based Methicillin-Resistant Staphylococcus aureus Transmission Linked to Patient Sharing Between Hospitals
O Tosas Auguet, RA Stabler, J Betley, MD Preston, M Dhaliwal, M Gaunt, ...
Clinical Infectious Diseases 66 (6), 840-848, 2018
A reference genome and methylome for the Plasmodium knowlesi A1-H. 1 line
ED Benavente, PF de Sessions, RW Moon, M Grainger, AA Holder, ...
International journal for parasitology 48 (3-4), 191-196, 2018
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
Novel genetic polymorphisms associated with severe malaria and under selective pressure in North-eastern Tanzania
M Ravenhall, S Campino, N Sepúlveda, A Manjurano, B Nadjm, G Mtove, ...
PLoS genetics 14 (1), e1007172, 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), 160, 2018
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LC Nacul, K Mudie, CC Kingdon, TG Clark
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Evidence for hostbacterial Co-evolution via genome sequence analysis of 480 Thai Mycobacterium tuberculosis lineage 1 isolates. Sci Rep 8: 11597
P Palittapongarnpim, P Ajawatanawong, W Viratyosin, N Smittipat, ...
Understanding molecular consequences of putative drug resistant mutations in Mycobacterium tuberculosis. Sci Rep 8 (1): 15356
S Portelli, JE Phelan, DB Ascher, TG Clark, N Furnham
Understanding molecular consequences of putative drug resistant mutations in Mycobacterium tuberculosis. Sci. Rep. 8, 15356
S Portelli, JE Phelan, DB Ascher, TG Clark, N Furnham
Global genetic diversity of var2csa in Plasmodium falciparum with implications for malaria in pregnancy and vaccine development. Sci Rep 8: 15429
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Methylation in Mycobacterium tuberculosis is lineage specific with associated mutations present globally. Sci Rep 8: 160
J Phelan, PF de Sessions, L Tientcheu, J Perdigao, D Machado, R Hasan, ...
Population-based analysis of ocular Chlamydia trachomatis in trachoma-endemic West African communities identifies genomic markers of disease severity
HMB Seth-Smith, J Hadfield, LT Cutcliffe, IN Clarke, DCW Mabey, ...
Novel genetic polymorphisms associated with severe malaria and under selective pressure in North-eastern Tanzania
B Nadjm, G Mtove, H Wangai, C Maxwell, R Olomi
GENOMIC PROFILE OF PLASMODIUM FALCIPARUM PARASITES LACKING HISTIDINE-RICH PROTEIN (PFHRP2) FROM ERITREA
K Beshir, A Berhane, S Mihreteab, A Ibrahim, E DiezBenavent, ...
AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE 99 (4), 533-533, 2018
CPLP-TB: uma nova ferramenta de vigilância transnacional da tuberculose no espaço lusófono
J Perdigão, C Silva, J Diniz, C Pereira, D Machado, J Ramos, H Silva, ...
Anais do Instituto de Higiene e Medicina Tropical 17, 87-90, 2018
A 15-year spatiotemporal analysis of Mycobacterium tuberculosis lineages 1 and 2 in Chiang Rai, Thailand
P Palittapongarnpim, P Ajawatanawong, N Smittipat, S Mahasirimongkol, ...
Инфекция и иммунитет 8 (4), 659-659, 2018
Distribuição dos casos de Tuberculose Pulmonar Multirresistente prevalentes em Salvador, Bahia, Brasil no período de 2008 a 2011 e sua relação com os perfis filogenéticos dos …
RT Carneiro, EO Sousa, EC Conceição, M Natividade, A Cabibbe, T Clark, ...
Sociedade Brasileira de Medicina Tropical, 2018
Know Your Heart: Rationale, design and conduct of a cross-sectional study of cardiovascular structure, function and risk factors in 4500 men and women aged 35-69 years from two …
S Cook, S Malyutina, AV Kudryavtsev, M Averina, N Bobrova, S Boytsov, ...
Wellcome open research 3, 2018
Genetic diversity of next generation antimalarial targets: A baseline for drug resistance surveillance programmes (vol 7, pg 174, 2017)
AR Gomes, M Ravenhall, ED Benavente, A Talman, C Sutherland, ...
INTERNATIONAL JOURNAL FOR PARASITOLOGY-DRUGS AND DRUG RESISTANCE 7 (3), 433-433, 2017
A multiple genome analysis of Mycobacterium tuberculosis reveals specific novel genes and mutations associated with pyrazinamide resistance
P Sheen, D Requena, E Gushiken, RH Gilman, R Antiparra, B Lucero, ...
BMC genomics 18, 1-11, 2017
Role of Alanine Racemase Mutations in Mycobacterium tuberculosisd-Cycloserine Resistance
Y Nakatani, HK Opel-Reading, M Merker, D Machado, S Andres, ...
Antimicrobial agents and chemotherapy 61 (12), 10.1128/aac. 01575-17, 2017
Modest heterologous protection after Plasmodium falciparum sporozoite immunization: a double-blind randomized controlled clinical trial
J Walk, IJ Reuling, MC Behet, L Meerstein-Kessel, W Graumans, ...
BMC medicine 15, 1-12, 2017
Single nucleotide polymorphisms in efflux pumps genes in extensively drug resistant Mycobacterium tuberculosis isolates from Pakistan
A Kanji, R Hasan, A Ali, A Zaver, Y Zhang, K Imtiaz, W Shi, TG Clark, ...
Tuberculosis 107, 20-30, 2017
Pyrazinamide resistance-conferring mutations in pncA and the transmission of multidrug resistant TB in Georgia
S Sengstake, IL Bergval, AR Schuitema, JL de Beer, J Phelan, ...
BMC infectious diseases 17, 1-9, 2017
G6PD deficiency alleles in a malaria-endemic region in the Western Brazilian Amazon
JG Dombrowski, RM Souza, J Curry, L Hinton, NRM Silva, L Grignard, ...
Malaria journal 16, 1-9, 2017
ELUCIDATION OF THE DIVERGENT APICOPLAST GENOMES OF PLASMODIUM OVALE CURTISI AND P. OVALE WALLIKERI
MC Oguike, ED Benavente, TG Clark, HP Fuehrer, A Pain, CJ Sutherland
AMER SOC TROP MED & HYGIENE, 2017
Frequent undetected MRSA ward-based transmission linked to patient sharing between hospitals
O Auguet, RA Stabler, J Betley, MD Preston, M Dhaliwal, M Gaunt, ...
Clinical Infectious Diseases 66 (6), 2017
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), 14407, 2017
Plasmodium falciparum infection during pregnancy impairs fetal head growth: prospective and populational-based retrospective studies
JG Dombrowski, RM de Souza, FA Lima, CL Bandeira, O Murillo, ...
bioRxiv, 203059, 2017
Analysis of nuclear and organellar genomes of Plasmodium knowlesi in humans reveals ancient population structure and recent recombination among host …
E Diez Benavente, P Florez de Sessions, RW Moon, AA Holder, ...
PLoS genetics 13 (9), e1007008, 2017
Structural nested mean models for assessing time-varying effect moderation
V Hoang, SK Medrek, M Pendurthi, C Kao, AD Parulekar, JC Yeung, ...
American Journal of Respiratory and Critical Care Medicine 196 (6), 782-784, 2017
Genetic diversity of next generation antimalarial targets: A baseline for drug resistance surveillance programmes
AR Gomes, M Ravenhall, ED Benavente, A Talman, C Sutherland, ...
International Journal for Parasitology: Drugs and Drug Resistance 7 (2), 174-180, 2017
Malaria host candidate genes validated by association with current, recent, and historical measures of transmission intensity
N Sepúlveda, A Manjurano, SG Campino, M Lemnge, J Lusingu, R Olomi, ...
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VarB: a variation browsing and analysis tool for variants derived from next-generation sequencing data
MD Preston, M Manske, N Horner, S Assefa, S Campino, S Auburn, ...
Bioinformatics 28 (22), 2983-2985, 2012
Candidate human genetic polymorphisms and severe malaria in a Tanzanian population
A Manjurano, TG Clark, B Nadjm, G Mtove, H Wangai, N Sepulveda, ...
PloS one 7 (10), e47463, 2012
Targeted Restoration of the Intestinal Microbiota with a Simple, Defined Bacteriotherapy Resolves Relapsing Clostridium difficile Disease in Mice
TD Lawley, S Clare, AW Walker, MD Stares, TR Connor, C Raisen, ...
PLoS pathogens 8 (10), e1002995, 2012
Candidate polymorphisms and severe malaria in a Malian population
O Toure, S Konate, S Sissoko, A Niangaly, A Barry, AH Sall, E Diarra, ...
Public Library of Science 7 (9), e43987, 2012
Variation in human genes encoding adhesion and proinflammatory molecules are associated with severe malaria in the Vietnamese
SJ Dunstan, KA Rockett, NTN Quyen, YY Teo, CQ Thai, NT Hang, ...
Genes & Immunity 13 (6), 503-508, 2012
Analysis of Plasmodium falciparum diversity in natural infections by deep sequencing
M Manske, O Miotto, S Campino, S Auburn, J Almagro-Garcia, G Maslen, ...
Nature 487 (7407), 375-379, 2012
Genomics and health in the developing world
D Kumar
Oxford University Press, USA, 2012
Investigation of host candidate malaria-associated risk/protective SNPs in a Brazilian Amazonian population
S da Silva Santos, TG Clark, S Campino, MC Suarez-Mutis, KA Rockett, ...
PloS one 7 (5), e36692, 2012
Haplotype analyses of haemoglobin C and haemoglobin S and the dynamics of the evolutionary response to malaria in Kassena-Nankana District of Ghana
A Ghansah, KA Rockett, TG Clark, MD Wilson, KA Koram, AR Oduro, ...
PloS one 7 (4), e34565, 2012
Characterization of within-host Plasmodium falciparum diversity using next-generation sequence data
S Auburn, S Campino, O Miotto, AA Djimde, I Zongo, M Manske, G Maslen, ...
PloS one 7 (2), e32891, 2012
VarB Plus: An Integrated Tool for Visualization of Genome Variation Datasets
L Hidayah
Investigation of Host Candidate Malaria-Associated Risk
S da Silva Santos, TG Clark, S Campino, MC Suarez-Mutis, KA Rockett
Protective, 2012
Candidate polymorphisms and severe malaria in a Malian population. PLoS One7: e43987
O Toure, S Konate, S Sissoko, A Niagnaly, A Barry, AH Sall, E Diarra, ...
Gordon Dougan. Targeted restoration of the intestinal microbiota with a simple, defined bacteriotherapy resolves relapsing Clostridium difficile disease in mice
D Trevor, SC Lawley, W Alan, MD Walker, TR Stares, CR Connor, ...
PLoS pathogens 8 (10), e1002995, 2012
An in-solution hybridisation method for the isolation of pathogen DNA from human DNA-rich clinical samples for analysis by NGS
M Smith, S Campino, Y Gu, TG Clark, TD Otto, G Maslen, M Manske, ...
The open genomics journal 5, 2012
Association of sub-microscopic malaria parasite carriage with transmission intensity in north-eastern Tanzania
A Manjurano, L Okell, T Lukindo, H Reyburn, R Olomi, C Roper, TG Clark, ...
Malaria journal 10, 1-8, 2011
Whole genome sequencing of multiple Leishmania donovani clinical isolates provides insights into population structure and mechanisms of drug resistance
T Downing, H Imamura, S Decuypere, TG Clark, GH Coombs, JA Cotton, ...
Genome research 21 (12), 2143-2156, 2011
Drug-Resistant Genotypes and Multi-Clonality in Plasmodium falciparum Analysed by Direct Genome Sequencing from Peripheral Blood of Malaria Patients
T Robinson, SG Campino, S Auburn, SA Assefa, SD Polley, M Manske, ...
PloS one 6 (8), e23204, 2011
HUMAN GENETIC POLYMORPHISMS AND THE RISK OF MALARIA-ASSOCIATED SEIZURES IN AFRICAN POPULATIONS
S Kariuki, K Rockett, T Clark, H Reyburn, T Agbenyega, T Taylor, ...
An Effective Method to Purify Plasmodium falciparum DNA Directly from Clinical Blood Samples for Whole Genome High-Throughput Sequencing
S Auburn, S Campino, TG Clark, AA Djimde, I Zongo, R Pinches, ...
PloS one 6 (7), e22213, 2011
Population Genetic Analysis of Plasmodium falciparum Parasites Using a Customized Illumina GoldenGate Genotyping Assay
S Campino, S Auburn, K Kivinen, I Zongo, JB Ouedraogo, V Mangano, ...
PloS one 6 (6), e20251, 2011
Sch€ onian
T Downing, H Imamura, S Decuypere, TG Clark, GH Coombs, JA Cotton, ...
G., Stark, O., Sundar, S., Vanaerschot, M., Hertz-Fowler, C., Dujardin, JC …, 2011
An Effective Method to Purify Plasmodium falciparum DNA Directly from Clinical Blood
S Auburn, S Campino, TG Clark, AA Djimde, I Zongo
Polymorphisms in leucine-rich repeat genes are associated with autism spectrum disorder susceptibility in populations of European ancestry
I Sousa, TG Clark, R Holt, AT Pagnamenta, EJ Mulder, RB Minderaa, ...
Molecular autism 1, 1-14, 2010
High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta
C Daelemans, ME Ritchie, G Smits, S Abu-Amero, IM Sudbery, MS Forrest, ...
BMC genetics 11, 1-20, 2010
Use of Purified Clostridium difficile Spores To Facilitate Evaluation of Health Care Disinfection Regimens
TD Lawley, S Clare, LJ Deakin, D Goulding, JL Yen, C Raisen, C Brandt, ...
Applied and environmental microbiology 76 (20), 6895-6900, 2010
Genome-wide association analyses identifies a susceptibility locus for tuberculosis on chromosome 18q11. 2
T Thye, FO Vannberg, SH Wong, E Owusu-Dabo, I Osei, J Gyapong, ...
Nature genetics 42 (9), 739-741, 2010
A Bayesian approach using covariance of single nucleotide polymorphism data to detect differences in linkage disequilibrium patterns between groups of individuals
TG Clark, SG Campino, E Anastasi, S Auburn, YY Teo, K Small, ...
Bioinformatics 26 (16), 1999-2003, 2010
Transforming growth factor beta 2 and heme oxygenase 1 genes are risk factors for the cerebral malaria syndrome in Angolan children
MR Sambo, MJ Trovoada, C Benchimol, V Quinhentos, L Gonçalves, ...
PLoS One 5 (6), e11141, 2010
High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta
MS Forrest, ET Dermitzakis, S Abu-Amero, G Smits, P Stanier, ME Ritchie, ...
Further evidence supporting a role for gs signal transduction in severe malaria pathogenesis
S Auburn, AE Fry, TG Clark, S Campino, M Diakite, A Green, ...
PLoS One 5 (4), e10017, 2010
Immune phenotype predicts risk for posttransplantation squamous cell carcinoma
RP Carroll, D San Segundo, K Hollowood, T Marafioti, TG Clark, ...
Journal of the American Society of Nephrology 21 (4), 713-722, 2010
A Bayesian approach to assess differences in linkage disequilibrium patterns in genomewide association studies
TG Clark, SG Campino, YY Teo, K Small, S Auburn, KA Rockett, ...
Bioinformatics 26, 1999-2003, 2010
Research article High-throughput analysis of candidate imprinted genes and allele-specific gene expression in the human term placenta
C Daelemans, ME Ritchie, G Smits, S Abu-Amero, IM Sudbery, MS Forrest, ...
International Molecular Genetic Study of Autism Consortium (IMGSAC): Polymorphisms in leucinerich repeat genes are associated with autism spectrum disorder susceptibility in …
I Sousa, TG Clark, R Holt, AT Pagnamenta, EJ Mulder, RB Minderaa, ...
Mol Autism 1, 7, 2010
Research Polymorphisms in leucine-rich repeat genes are associated with autism spectrum disorder susceptibility in populations of European ancestry
I Sousa, TG Clark, R Holt, AT Pagnamenta, EJ Mulder, RB Minderaa
TLR9 polymorphisms in African populations: no association with severe malaria, but evidence of cis-variants acting on gene expression
S Campino, J Forton, S Auburn, A Fry, M Diakite, A Richardson, J Hull, ...
Malaria Journal 8, 1-8, 2009
SnoopCGH: software for visualizing comparative genomic hybridization data
J Almagro-Garcia, M Manske, C Carret, S Campino, S Auburn, ...
Bioinformatics 25 (20), 2732-2733, 2009
Genome-wide comparisons of variation in linkage disequilibrium
YY Teo, AE Fry, K Bhattacharya, KS Small, DP Kwiatkowski, TG Clark
Genome research 19 (10), 1849-1860, 2009
Allelic heterogeneity of G6PD deficiency in West Africa and severe malaria susceptibility
TG Clark, AE Fry, S Auburn, S Campino, M Diakite, A Green, ...
European Journal of Human Genetics 17 (8), 1080-1085, 2009
Positive selection of a CD36 nonsense variant in sub-Saharan Africa, but no association with severe malaria phenotypes
AE Fry, A Ghansa, KS Small, A Palma, S Auburn, M Diakite, A Green, ...
Human molecular genetics 18 (14), 2683-2692, 2009
Genome-wide and fine-resolution association analysis of malaria in West Africa
M Jallow, YY Teo, KS Small, KA Rockett, P Deloukas, TG Clark, K Kivinen, ...
Nature genetics 41 (6), 657-665, 2009
MET and autism susceptibility: family and case–control studies
I Sousa, TG Clark, C Toma, K Kobayashi, M Choma, R Holt, NH Sykes, ...
European Journal of Human Genetics 17 (6), 749-758, 2009
Tumor necrosis factor and lymphotoxin-α polymorphisms and severe malaria in African populations
TG Clark, M Diakite, S Auburn, S Campino, AE Fry, A Green, ...
The Journal of infectious diseases 199 (4), 569-575, 2009
A genetic association study in the Gambia using tagging polymorphisms in the major histocompatibility complex class III region implicates a HLA-B associated transcript 2 …
M Diakite, TG Clark, S Auburn, S Campino, AE Fry, A Green, AP Morris, ...
Human genetics 125, 105-109, 2009
Power consequences of linkage disequilibrium variation between populations
YY Teo, KS Small, AE Fry, Y Wu, DP Kwiatkowski, TG Clark
Genetic Epidemiology: The Official Publication of the International Genetic …, 2009
Lack of association of interferon regulatory factor 1 with severe malaria in affected child-parental trio studies across three African populations
VD Mangano, TG Clark, S Auburn, S Campino, M Diakite, AE Fry, A Green, ...
PLoS One 4 (1), e4206, 2009
KWIATKOWSKI DP WELLCOME TRUST CASE CONTROL C, MALARIA GENOMIC EPIDEMIOLOGY N. Genome-wide and fine-resolution association analysis of malaria in West Africa
M Jallow, YY Teo, KS Small, KA Rockett, P Deloukas, TG Clark, K Kivinen, ...
Nat Genet 41, 657-65, 2009
A cost-effective method to purify Plasmodium DNA from clinical malaria samples for “next generation” whole genome sequencing
S Auburn, S Campino, AA Djimde, JB Ouédraogo, I Zongo, TG Clark, ...
Mahamadou Thera, Marita Troye-Blomberg, Thomas N Williams, Michael Wilson, and Dominic P Kwiatkowski. Genome-wide and fine-resolution association analysis of malaria in West Africa
M Jallow, YY Teo, KS Small, KA Rockett, P Deloukas, TG Clark, K Kivinen, ...
Nature Genetics 41 (6), 657-665, 2009
Lack of Association of Interferon Regulatory Factor 1 with Severe Malaria in Affected
VD Mangano, TG Clark, S Auburn, S Campino, M Diakite
High Numbers of FOXP3 (+) T Cells and Poor Lymphocyte Proliferation Identifies Patients at High Risk of Developing Squamous Cell Cancer after Renal Transplantation.
R Carroll, D Arribas, T Clark, P Harden, K Wood
Validating Discovered Cis-Acting Regulatory Genetic Variants: Application of an Allele Specific Expression Approach to HapMap Populations
S Campino, J Forton, S Raj, B Mohr, S Auburn, A Fry, VD Mangano, ...
PLoS One 3 (12), e4105, 2008
A global network for investigating the genomic epidemiology of malaria
Project Management Committee Agbenyega Tsiri 2 Carucci Dan 36 Cook Katharine ...
Nature 456 (7223), 732-737, 2008
Assessing genuine parents-offspring trios for genetic association studies
YY Teo, AE Fry, MA Sanjoaquin, B Pederson, KS Small, KA Rockett, ...
Human heredity 67 (1), 26-37, 2008
The genome of the simian and human malaria parasite Plasmodium knowlesi
A Pain, U Böhme, AE Berry, K Mungall, RD Finn, AP Jackson, T Mourier, ...
Nature 455 (7214), 799-803, 2008
An evolutionary algorithm to find associations in dense genetic maps
TG Clark, M De Iorio, RC Griffths
IEEE transactions on evolutionary computation 12 (3), 297-306, 2008
BRLMM: An improved genotype calling method for the GeneChip human mapping 500K array set
YY Teo, KS Small, TG Clark, DP Kwiatkowski
ANNALS OF HUMAN GENETICS 72, 368-374, 2008
Perturbation Analysis: A Simple Method for Filtering SNPs with Erroneous Genotyping in Genome‐Wide Association Studies
YY Teo, KS Small, TG Clark, DP Kwiatkowski
Annals of human genetics 72 (3), 368-374, 2008
Interferon regulatory factor-1 polymorphisms are associated with the control of Plasmodium falciparum infection
VD Mangano, G Luoni, KA Rockett, BS Sirima, A Konaté, J Forton, ...
Genes & Immunity 9 (2), 122-129, 2008
Genome‐wide significance for dense SNP and resequencing data
CJ Hoggart, TG Clark, M De Iorio, JC Whittaker, DJ Balding
Genetic Epidemiology: The Official Publication of the International Genetic …, 2008
Interferon-gamma signalling pathway in protection against malaria: new insights from a genetic approach
V Mangano, T Clark, S Auburn, S Campino, M Diakite, A Fry, A Green, ...
A global network for genomic epidemiology of malaria
MalariaGEN Consortium
Nature, 2008
Validation of a new prognostic index for advanced epithelial ovarian cancer: results from its application to a UK-based cohort
TG Clark, M Stewart, T Rye, JF Smyth, C Gourley
Journal of clinical oncology 25 (35), 5669-5669, 2007
Sequence-level population simulations over large genomic regions
CJ Hoggart, M Chadeau-Hyam, TG Clark, R Lampariello, JC Whittaker, ...
Genetics 177 (3), 1725-1731, 2007
A genotype calling algorithm for the Illumina BeadArray platform
YY Teo, M Inouye, KS Small, R Gwilliam, P Deloukas, DP Kwiatkowski, ...
Bioinformatics 23 (20), 2741-2746, 2007
Data sheet: Sentrix HumanHap550 genotyping BeadChip
YY Teo, AE Fry, TG Clark, ES Tai, M Seielstad
ANNALS OF HUMAN GENETICS 71, 701-703, 2007
Functional constraint and small insertions and deletions in the ENCODE regions of the human genome
TG Clark, T Andrew, GM Cooper, EH Margulies, JC Mullikin, DJ Balding
Genome biology 8, 1-14, 2007
On the usage of HWE for identifying genotyping errors.
YY Teo, AE Fry, TG Clark, ES Tai, M Seielstad
Annals of Human genetics 71 (5), 2007
Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project
Management Group Liefer Laura A. 51 Wetterstrand Kris A. 51 Good Peter J. 51 ...
nature 447 (7146), 799-816, 2007
Personality and smoking status: A meta-analysis
MR Munafo, JI Zetteler, TG Clark
Nicotine & Tobacco Research 9 (3), 405-413, 2007
Estimating the number of coding mutations in genotypic and phenotypic driven N-ethyl-N-nitrosourea (ENU) screens: revisited
DA Keays, TG Clark, TG Campbell, J Broxholme, W Valdar
Mammalian Genome 18, 123-124, 2007
Interferon Regulatory Factor 1 and susceptibility to malaria.
V Mangano, G Luoni, K Rockett, B Sirima, A Konatè, J Forton, T Clark, ...
Structured additive regression for categorical space-time data. A mixed model approach.
AA Abiodun, BA Oyejola, AA Abiodun, PK Andersen, O Borgan, RD Gill, ...
Asian Journal of Mathematics & Statistics 5 (1), 74-79, 2007
Bayesian logistic regression using a perfect phylogeny
TG Clark, M De Iorio, RC Griffiths
Biostatistics 8 (1), 32-52, 2007
Association of the NRG1 gene and schizophrenia: a meta-analysis
MR Munafo, DL Thiselton, TG Clark, J Flint
Molecular psychiatry 11 (6), 539-546, 2006
Apolipoproteins as predictors of ischaemic stroke in patients with a previous transient ischaemic attack
M Bhatia, SC Howard, TG Clark, R Neale, N Qizilbash, MFG Murphy, ...
Cerebrovascular diseases 21 (5-6), 323-328, 2006
Estimating the number of coding mutations in genotypic- and phenotypic-driven N-ethyl-N-nitrosourea (ENU) screens
DA Keays, TG Clark, J Flint
Mammalian genome 17, 230-238, 2006
Neuroticism mediates the association of the serotonin transporter gene with lifetime major depression
MR Munafò, TG Clark, KH Roberts, EC Johnstone
Neuropsychobiology 53 (1), 1-8, 2006
Does smoking influence survival in cancer patients through effects on respiratory and vascular disease?
TG Clark, MFG Murphy, K Hey, M Drury, KK Cheng, P Aveyard
European journal of cancer prevention 15 (1), 87-90, 2006
日本語目次
SN Willich, CG Choi, DC Suh, D Leys, L Parnetti, R Schmidt, ...
Cerebrovascular Diseases 21, 2006
中文目錄表
SN Willich, CG Choi, DC Suh, D Leys, L Parnetti, R Schmidt, ...
Cerebrovascular Diseases 21, 2006
EUSI News
SN Willich, CG Choi, DC Suh, D Leys, L Parnetti, R Schmidt, ...
Cerebrovascular Diseases 21 (5-6), 425-425, 2006
Journal of Undergraduate Research, Volume VI, 2006
P Faletra, A Schuetz, D Cherkerzian, T Clark
DOESC (USDOE Office of Science (SC)(United States)), 2006
Finding associations in dense genetic maps: a genetic algorithm approach
TG Clark, M De Iorio, RC Griffiths, M Farrall
Human Heredity 60 (2), 97-108, 2005
Association of the dopamine-β-hydroxylase gene with nicotine dependence: No evidence for mediation by personality
JI Zetteler, TG Clark, EC Johnstone, MR Munafò
Personality and individual differences 39 (6), 1113-1122, 2005
Promise and pitfalls in the meta-analysis of genetic association studies: a response to Sen and Schinka
MR Munafo, T Clark, J Flint
Molecular Psychiatry 10 (10), 895-897, 2005
Meta-analysis of genetic association studies: Limitations, and directions for future research
M Munafo, T Clark, J Flint
Analysis of IL10 haplotypic associations with severe malaria
JN Wilson, K Rockett, M Jallow, M Pinder, F Sisay-Joof, M Newport, ...
Genes & Immunity 6 (6), 462-466, 2005
Lack of association of the COMT (Val158/108 Met) gene and schizophrenia: a meta-analysis of case–control studies
MR Munafo, L Bowes, TG Clark, J Flint
Molecular psychiatry 10 (8), 765-770, 2005
Does measurement instrument moderate the association between the serotonin transporter gene and anxiety-related personality traits? A meta-analysis
MR Munafo, T Clark, J Flint
Molecular psychiatry 10 (4), 415-419, 2005
Sequence-level population genomic simulations
DJ Balding, T Clark, CJ Hoggart
WILEY-LISS 29 (3), 235-236, 2005
Assessing publication bias in genetic association studies: evidence from a recent meta-analysis
MR Munafò, TG Clark, J Flint
Psychiatry research 129 (1), 39-44, 2004
Fibrinogen concentration and risk of ischemic stroke and acute coronary events in 5113 patients with transient ischemic attack and minor ischemic stroke
PM Rothwell, SC Howard, DA Power, SA Gutnikov, A Algra, J van Gijn, ...
Stroke 35 (10), 2300-2305, 2004
Are there sex differences in the association between the 5HTT gene and neuroticism? A meta-analysis
MR Munafò, TG Clark, J Flint
Personality and Individual Differences 37 (3), 621-626, 2004
The genetic basis for smoking behavior: a systematic review and meta-analysis
MR Munafo, TG Clark, EC Johnstone, MFG Murphy, RT Walton
Nicotine & Tobacco Research 6 (4), 583-597, 2004
Apolipoproteins predict ischaemic stroke in patients with a previous transient ischaemic attack
M Bhatia, S Howard, T Clark, M Murphy, P Rothwell
The cerebrovascular cohort studies collaboration: Fibrinogen concentration and risk of ischaemic stroke and acute coronary events in 5113 patients with transient ischaemic …
PM Rothwell, SC Howard, DA Power, SA Gutnikov, A Algra, J van Gijn, ...
Stroke 35, 2300-2305, 2004
Thegeneticbasisforsmokingbehaviour: Asystematic reviewandmeta-analysis
MR Munafo, TG Clark, EC Johnstone, MFG Murphy, R Wal-ton
NicotineandTobaccoResearch6, 2004
Statistical methods for finding associations in dense genetic regions
TG Clark
University of Oxford, 2004
Should intensive preventive treatment be continued indefinitely after a transient ischaemic attack?
E Flossmann, T Clark, M Murphy, P Rothwell
Survival analysis part IV: further concepts and methods in survival analysis
TG Clark, MJ Bradburn, SB Love, DG Altman
British journal of cancer 89 (5), 781-786, 2003
Survival analysis part III: multivariate data analysis–choosing a model and assessing its adequacy and fit
MJ Bradburn, TG Clark, SB Love, DG Altman
British journal of cancer 89 (4), 605-611, 2003
Survival analysis part II: multivariate data analysis–an introduction to concepts and methods
MJ Bradburn, TG Clark, SB Love, DG Altman
British journal of cancer 89 (3), 431-436, 2003
Expression profile of wild‐type ETV6 in childhood acute leukaemia
N Patel, LK Goff, T Clark, AM Ford, N Foot, D Lillington, S Hing, ...
British journal of haematology 122 (1), 94-98, 2003
Motor vehicle driver injury and socioeconomic status: a cohort study with prospective and retrospective driver injuries
G Whitlock, R Norton, T Clark, M Pledger, R Jackson, S MacMahon
Journal of Epidemiology & Community Health 57 (7), 512-516, 2003
Survival analysis part I: basic concepts and first analyses
TG Clark, MJ Bradburn, SB Love, DG Altman
British journal of cancer 89 (2), 232-238, 2003
Long term risks of stroke, myocardial infarction, and vascular death in “low risk” patients with a non-recent transient ischaemic attack
TG Clark, MFG Murphy, PM Rothwell
Journal of Neurology, Neurosurgery & Psychiatry 74 (5), 577-580, 2003
Missing.... presumed at random: cost‐analysis of incomplete data
A Briggs, T Clark, J Wolstenholme, P Clarke
Health economics 12 (5), 377-392, 2003
Genetic polymorphisms and personality in healthy adults: a systematic review and meta-analysis
MR Munafo, TG Clark, LR Moore, E Payne, R Walton, J Flint
Molecular psychiatry 8 (5), 471-484, 2003
Is body mass index a risk factor for motor vehicle driver injury? A cohort study with prospective and retrospective outcomes
G Whitlock, R Norton, T Clark, R Jackson, S MacMahon
International journal of epidemiology 32 (1), 147-149, 2003
Survival analysis part III: Basic concepts and first analyses
MJ Bradburn, TG Clark, SB Love, DG Altman
British Journal of Cancer 89, 605-611, 2003
List of contents
JR Kelley, JM Duggan, KM Dunn, K Jordan, PR Croft, EB Fortescue, ...
J Clin Epidemiol 56 (12), 1248-1260, 2003
Developing a prognostic model in the presence of missing data: an ovarian cancer case study
TG Clark, DG Altman
Journal of clinical epidemiology 56 (1), 28-37, 2003
Polymorphisms in dopamine metabolic enzymes and tobacco consumption in smokers: seeking confirmation of the association in a follow-up study
EC Johnstone, TG Clark, SE Griffiths, MFG Murphy, RT Walton
Pharmacogenetics and Genomics 12 (7), 585-587, 2002
Quantification of the completeness of follow-up
TG Clark, DG Altman, BL De Stavola
The Lancet 359 (9314), 1309-1310, 2002
Recurrence after abdominal surgery for Crohn's disease: relationship to disease site and surgical procedure
NR Borley, NJMC Mortensen, MA Chaudry, S Mohammed, BF Warren, ...
Diseases of the colon & rectum 45 (3), 377-383, 2002
Evidence for separate disease phenotypes in intestinal Crohn's disease
JDP Borley NR, Mortensen NJ, Chaudry MA, Mohammed S, Clarke T
Br J Surg 89 (2), 201-5, 2002
ERULF (Energy Research Undergraduate Laboratory Fellowship)
P Faletra, K Franz, T Clark, K Manning, C Musick, K Sokolski
The effect of missing values for covariates
G Whitlock, T Clark
Epidemiology 13 (1), 113, 2002
Comparative expression profiles of ETV6, CBFA2 and ETV6-CBFA2 in disease and remission states in childhood acute leukemia.
N Patel, L Goff, T Clark, N Foot, D Lillington, S Hing, K Pritchard-Jones, ...
Blood 98 (11), 163b-163b, 2001
Random errors in the measurement of 10 cardiovascular risk factors
G Whitlock, T Clark, S Vander Hoorn, A Rodgers, R Jackson, R Norton, ...
European journal of epidemiology 17, 907-909, 2001
A prognostic model for ovarian cancer
TG Clark, ME Stewart, DG Altman, H Gabra, JF Smyth
British journal of cancer 85 (7), 944-952, 2001
Expression profile of ETV6, CBFA2 and ETV6-CBFA2 in childhood ALL and AML
N Patel, L Goff, LK Jones, T Clark, T Foot, D Lillington, S Hing, ...
British Journal of Cancer 85, 31-31, 2001
Blood pressure, cholesterol and cardiovascular diseases in eastern Asia
A Rodgers
PhD Thesis-University of Auckland, 2001
Stewart ME. A1tman DG. et a1. A pr0l; no6tic modelfor ovarian caBcer
C TG
Br J~ nce 85 (7), 944-952, 2001