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Simon R. Harris
Simon R. Harris
Head of Bioinformatics, Microbiotica
Verified email at sanger.ac.uk
Title
Cited by
Cited by
Year
A tale of three next generation sequencing platforms: comparison of Ion torrent, pacific biosciences and illumina MiSeq sequencers
M Quail, ME Smith, P Coupland, TD Otto, SR Harris, TR Connor, A Bertoni, ...
BMC genomics 13 (1), 341, 2012
23972012
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
NJ Croucher, AJ Page, TR Connor, AJ Delaney, JA Keane, SD Bentley, ...
Nucleic acids research 43 (3), e15-e15, 2015
13312015
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
12622013
Evolution of MRSA during hospital transmission and intercontinental spread
SR Harris, EJ Feil, MTG Holden, MA Quail, EK Nickerson, N Chantratita, ...
Science 327 (5964), 469-474, 2010
11852010
Rapid pneumococcal evolution in response to clinical interventions
NJ Croucher, SR Harris, C Fraser, MA Quail, J Burton, M van der Linden, ...
Science 331 (6016), 430-434, 2011
9022011
Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data
T Carver, SR Harris, M Berriman, J Parkhill, JA McQuillan
Bioinformatics 28 (4), 464-469, 2012
8972012
Emergence and global spread of epidemic healthcare-associated Clostridium difficile
M He, F Miyajima, P Roberts, L Ellison, DJ Pickard, MJ Martin, TR Connor, ...
Nature Genetics, 2012
7212012
Rapid whole-genome sequencing for investigation of a neonatal MRSA outbreak
CU Köser, MTG Holden, MJ Ellington, EJP Cartwright, NM Brown, ...
New England Journal of Medicine 366 (24), 2267-2275, 2012
7142012
Evidence for several waves of global transmission in the seventh cholera pandemic
A Mutreja, DW Kim, NR Thomson, TR Connor, JH Lee, S Kariuki, ...
Nature 477 (7365), 462-465, 2011
6902011
Whole-genome sequencing to identify transmission of <i>Mycobacterium abscessus</i> between patients with cystic fibrosis: a retrospective cohort study
JM Bryant, DM Grogono, D Greaves, J Foweraker, I Roddick, T Inns, ...
The Lancet, 2013
6212013
Circlator: automated circularization of genome assemblies using long sequencing reads
M Hunt, N De Silva, TD Otto, J Parkhill, JA Keane, SR Harris
Genome biology 16 (1), 1-10, 2015
6192015
SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments
AJ Page, B Taylor, AJ Delaney, J Soares, T Seemann, JA Keane, ...
Microbial Genomics 2 (4), 2016
6072016
Whole-genome sequencing for analysis of an outbreak of meticillin-resistant Staphylococcus aureus: a descriptive study
SR Harris, EJP Cartwright, ME Török, MTG Holden, NM Brown, ...
The Lancet Infectious Diseases 13 (2), 130-136, 2013
5992013
Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis
KI Bos, KM Harkins, A Herbig, M Coscolla, N Weber, I Comas, SA Forrest, ...
Nature 514 (7523), 494-497, 2014
5242014
Evolution and transmission of drug-resistant tuberculosis in a Russian population
N Casali, V Nikolayevskyy, Y Balabanova, SR Harris, O Ignatyeva, ...
Nature genetics 46 (3), 279-286, 2014
4962014
A genomic portrait of the emergence, evolution and global spread of a methicillin resistant Staphylococcus aureus pandemic
MTG Holden, LY Hsu, K Kurt, LA Weinert, AE Mather, SR Harris, ...
Genome Research, 2013
4402013
ARIBA: rapid antimicrobial resistance genotyping directly from sequencing reads
M Hunt, AE Mather, L Sánchez-Busó, AJ Page, J Parkhill, JA Keane, ...
Microbial genomics 3 (10), 2017
4212017
Genomic and genetic analyses of diversity and plant interactions of Pseudomonas fluorescens
MW Silby, AM Cerdeńo-Tárraga, GS Vernikos, SR Giddens, RW Jackson, ...
Genome biology 10 (5), 1, 2009
4212009
Emergence and spread of a human-transmissible multidrug-resistant nontuberculous mycobacterium
JM Bryant, DM Grogono, D Rodriguez-Rincon, I Everall, KP Brown, ...
Science 354 (6313), 751-757, 2016
4102016
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
3962015
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