| 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 | 1459 | 2017 |
| 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 | 900 | 2013 |
| Bandage: interactive visualization of de novo genome assemblies RR Wick, MB Schultz, J Zobel, KE Holt Bioinformatics 31 (20), 3350-2, 2015 | 643 | 2015 |
| 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 | 632 | 2014 |
| 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 | 599 | 2015 |
| 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 | 536 | 2015 |
| 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 | 507 | 2008 |
| Open-source genomic analysis of Shiga-toxin-producing E. coli O104:H4 New England Journal of Medicine 365 (8), 718-724, 2011 | 494 | 2011 |
| 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 | 480 | 2009 |
| 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 | 348 | 2010 |
| 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 | 342 | 2015 |
| 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 | 323 | 2005 |
| 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 | 249 | 2012 |
| Completing bacterial genome assemblies with multiplex MinION sequencing RR Wick, LM Judd, CL Gorrie, KE Holt Microbial Genomics, 2017 | 213 | 2017 |
| Performance of neural network basecalling tools for Oxford Nanopore sequencing RR Wick, LM Judd, KE Holt Genome Biology 20 (1), 129, 2019 | 188 | 2019 |
| 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 | 187 | 2016 |
| Gastrointestinal carriage is a major reservoir of Klebsiella pneumoniae infection in intensive care patients CL Gorrie, M Mirčeta, RR Wick, DJ Edwards, NR Thomson, RA Strugnell, ... Clinical Infectious Diseases 65 (2), 208-215, 2017 | 180 | 2017 |
| 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 | 177 | 2009 |
| 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 | 157 | 2010 |
| 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 | 140 | 2016 |
Ryan WickMonash UniversityVerified email at monash.edu
