Kathryn Holt
Kathryn Holt
Monash University & LSHTM
Verified email at lshtm.ac.uk - Homepage
TitleCited byYear
Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans
I Comas, M Coscolla, T Luo, S Borrell, KE Holt, M Kato-Maeda, J Parkhill, ...
Nature genetics 45 (10), 1176-1182, 2013
7462013
Unicycler: resolving bacterial genome assemblies from short and long sequencing reads
RR Wick, LM Judd, CL Gorrie, KE Holt
PLOS Computational Biology 13 (6), e1005595, 2017
6442017
High-throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi
KE Holt, J Parkhill, CJ Mazzoni, P Roumagnac, FX Weill, I Goodhead, ...
Nature genetics 40 (8), 987-993, 2008
4772008
SRST2: Rapid genomic surveillance for public health and hospital microbiology labs
M Inouye, H Dashnow, LA Raven, MB Schultz, BJ Pope, T Tomita, J Zobel, ...
Genome Medicine 6 (11), 1-16, 2014
4612014
Genomic analysis of diversity, population structure, virulence, and antimicrobial resistance in Klebsiella pneumoniae, an urgent threat to public health
KE Holt, H Wertheim, RN Zadoks, S Baker, CA Whitehouse, D Dance, ...
Proceedings of the National Academy of Sciences 112 (27), E3574-E3581, 2015
4452015
Open-source genomic analysis of Shiga-toxin-producing E. coli O104:H4
New England Journal of Medicine 365 (8), 718-724, 2011
4342011
The Infant Nasopharyngeal Microbiome Impacts Severity of Lower Respiratory Infection and Risk of Asthma Development
SM Teo, D Mok, K Pham, M Kusel, M Serralha, N Troy, BJ Holt, BJ Hales, ...
Cell Host and Microbe 17 (5), 704-715, 2015
4262015
Epidemic multiple drug resistant Salmonella Typhimurium causing invasive disease in sub-Saharan Africa have a distinct genotype
RA Kingsley, CL Msefula, NR Thomson, S Kariuki, KE Holt, MA Gordon, ...
Genome research 19 (12), 2279-2287, 2009
4062009
Bandage: interactive visualization of de novo genome assemblies
RR Wick, MB Schultz, J Zobel, KE Holt
Bioinformatics 31 (20), 3350-2, 2015
3792015
Evolutionary dynamics of Clostridium difficile over short and long time scales
M He, M Sebaihia, TD Lawley, RA Stabler, LF Dawson, MJ Martin, KE Holt, ...
Proceedings of the National Academy of Sciences 107 (16), 7527, 2010
3352010
An immunoepidemiological approach to asthma: identification of in-vitro T cell response patterns associated with different wheezing phenotypes in children
T Heaton, J Rowe, S Turner, RC Aalberse, N De Klerk, D Suriyaarachchi, ...
The Lancet 365 (9454), 142-149, 2005
3172005
Phylogeographical analysis of the dominant multidrug-resistant H58 clade of Salmonella Typhi identifies inter-and intracontinental transmission events
VK Wong, S Baker, DJ Pickard, J Parkhill, AJ Page, NA Feasey, ...
Nature Genetics 47 (6), 632-639, 2015
2542015
Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe
KE Holt, S Baker, FX Weill, EC Holmes, A Kitchen, J Yu, V Sangal, ...
Nature genetics 44 (9), 1056-1059, 2012
2062012
Pseudogene accumulation in the evolutionary histories of Salmonella enterica serovars Paratyphi A and Typhi
K Holt, N Thomson, J Wain, G Langridge, R Hasan, Z Bhutta, M Quail, ...
BMC genomics 10 (1), 36, 2009
1492009
Typhoid in Kenya is associated with a dominant multidrug-resistant Salmonella enterica serovar Typhi haplotype that is also widespread in Southeast Asia
S Kariuki, G Revathi, J Kiiru, DM Mengo, J Mwituria, J Muyodi, A Munyalo, ...
Journal of clinical microbiology 48 (6), 2171, 2010
1332010
Completing bacterial genome assemblies with multiplex MinION sequencing
RR Wick, LM Judd, CL Gorrie, KE Holt
Microbial Genomics, 2017
1212017
On the origin of Mycobacterium ulcerans, the causative agent of buruli ulcer
KD Doig, KE Holt, JAM Fyfe, CJ Lavender, M Eddyani, F Portaels, ...
BMC genomics 13 (1), 258, 2012
1152012
Beginner’s guide to comparative bacterial genome analysis using next-generation sequence data
DJ Edwards, KE Holt
Microb Inform Exp 3 (1), 2, 2013
1132013
Identification of Klebsiella capsule synthesis loci from whole genome data
K Wyres, RR Wick, C Gorrie, A Jenney, R Follador, NR Thomson, KE Holt
bioRxiv, 071415, 2016
1102016
Genome-scale rates of evolutionary change in bacteria
S Duchêne, KE Holt, FX Weill, S Le Hello, J Hawkey, DJ Edwards, ...
Microbial Genomics 2 (11), 2016
992016
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Articles 1–20