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Whole Genome Sequencing of a Methicillin-Resistant Staphylococcus aureus Pseudo-Outbreak in a Professional Football Team.
Published in:
2014
By:
- Anderson, Deverick J.;
- Harris, Simon R.;
- Godofsky, Eliot;
- Toriscelli, Todd;
- Rude, Thomas H.;
- Elder, Kevin;
- Sexton, Daniel J.;
- Pellman, Elliot J.;
- Mayer, Thom;
- Fowler, Vance G.;
- Peacock, Sharon J.
Publication type:
Case Study
Rapid Bacterial Whole-Genome Sequencing to Enhance Diagnostic and Public Health Microbiology.
Published in:
JAMA Internal Medicine, 2013, v. 173, n. 15, p. 1397, doi. 10.1001/jamainternmed.2013.7734
By:
- Reuter, Sandra;
- Ellington, Matthew J.;
- Cartwright, Edward J. P.;
- Köser, Claudio U.;
- Török, M. Estée;
- Gouliouris, Theodore;
- Harris, Simon R.;
- Brown, Nicholas M.;
- Holden, Matthew T. G.;
- Quail, Mike;
- Parkhill, Julian;
- Smith, Geoffrey P.;
- Bentley, Stephen D.;
- Peacock, Sharon J.
Publication type:
Article
Microevolution of Monophasic Salmonella Typhimurium during Epidemic, United Kingdom, 2005-2010.
Published in:
2016
By:
- Petrovska, Liljana;
- Mather, Alison E.;
- AbuOun, Manal;
- Branchu, Priscilla;
- Harris, Simon R.;
- Connor, Thomas;
- Hopkins, K. L.;
- Underwood, A.;
- Lettini, Antonia A.;
- Page, Andrew;
- Bagnall, Mary;
- Wain, John;
- Parkhill, Julian;
- Dougan, Gordon;
- Davies, Robert;
- Kingsley, Robert A.
Publication type:
journal article
A high-resolution genomic analysis of multidrug-resistant hospital outbreaks of Klebsiella pneumoniae.
Published in:
EMBO Molecular Medicine, 2015, v. 7, n. 3, p. 227, doi. 10.15252/emmm.201404767
By:
- Chung The, Hao;
- Karkey, Abhilasha;
- Pham Thanh, Duy;
- Boinett, Christine J;
- Cain, Amy K;
- Ellington, Matthew;
- Baker, Kate S;
- Dongol, Sabina;
- Thompson, Corinne;
- Harris, Simon R;
- Jombart, Thibaut;
- Le Thi Phuong, Tu;
- Tran Do Hoang, Nhu;
- Ha Thanh, Tuyen;
- Shretha, Shrijana;
- Joshi, Suchita;
- Basnyat, Buddha;
- Thwaites, Guy;
- Thomson, Nicholas R;
- Rabaa, Maia A
Publication type:
Article
Whole genome sequencing identifies zoonotic transmission of MRSA isolates with the novel mecA homologue mecC.
Published in:
EMBO Molecular Medicine, 2013, v. 5, n. 4, p. 509, doi. 10.1002/emmm.201202413
By:
- Harrison, Ewan M.;
- Paterson, Gavin K.;
- Holden, Matthew T.G.;
- Larsen, Jesper;
- Stegger, Marc;
- Larsen, Anders Rhod;
- Petersen, Andreas;
- Skov, Robert L.;
- Christensen, Judit Marta;
- Bak Zeuthen, Anne;
- Heltberg, Ole;
- Harris, Simon R.;
- Zadoks, Ruth N.;
- Parkhill, Julian;
- Peacock, Sharon J.;
- Holmes, Mark A.
Publication type:
Article
Genomic evolution of Neisseria gonorrhoeae since the preantibiotic era (1928–2013): antimicrobial use/misuse selects for resistance and drives evolution.
Published in:
BMC Genomics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12864-020-6511-6
By:
- Golparian, Daniel;
- Harris, Simon R.;
- Sánchez-Busó, Leonor;
- Hoffmann, Steen;
- Shafer, William M.;
- Bentley, Stephen D.;
- Jensen, Jörgen S.;
- Unemo, Magnus
Publication type:
Article
Bayesian inference of ancestral dates on bacterial phylogenetic trees.
Published in:
Nucleic Acids Research, 2018, v. 46, n. 22, p. e134, doi. 10.1093/nar/gky783
By:
- Didelot, Xavier;
- Croucher, Nicholas J;
- Bentley, Stephen D;
- Harris, Simon R;
- Wilson, Daniel J
Publication type:
Article
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins.
Published in:
Nucleic Acids Research, 2015, v. 43, n. 3, p. e15, doi. 10.1093/nar/gku1196
By:
- Croucher, Nicholas J.;
- Page, Andrew J.;
- Connor, Thomas R.;
- Delaney, Aidan J.;
- Keane, Jacqueline A.;
- Bentley, Stephen D.;
- Parkhill, Julian;
- Harris, Simon R.
Publication type:
Article
Detection of recombination events in bacterial genomes from large population samples.
Published in:
Nucleic Acids Research, 2012, v. 40, n. 1, p. 1, doi. 10.1093/nar/gkr928
By:
- Marttinen, Pekka;
- Hanage, William P.;
- Croucher, Nicholas J.;
- Connor, Thomas R.;
- Harris, Simon R.;
- Bentley, Stephen D.;
- Corander, Jukka
Publication type:
Article
A community-driven resource for genomic epidemiology and antimicrobial resistance prediction of Neisseria gonorrhoeae at Pathogenwatch.
Published in:
Genome Medicine, 2021, v. 13, n. 1, p. 1, doi. 10.1186/s13073-021-00858-2
By:
- Sánchez-Busó, Leonor;
- Yeats, Corin A.;
- Taylor, Benjamin;
- Goater, Richard J.;
- Underwood, Anthony;
- Abudahab, Khalil;
- Argimón, Silvia;
- Ma, Kevin C.;
- Mortimer, Tatum D.;
- Golparian, Daniel;
- Cole, Michelle J.;
- Grad, Yonatan H.;
- Martin, Irene;
- Raphael, Brian H.;
- Shafer, William M.;
- Town, Katy;
- Wi, Teodora;
- Harris, Simon R.;
- Unemo, Magnus;
- Aanensen, David M.
Publication type:
Article
Correction: Signatures of Adaptation in Human Invasive Salmonella Typhimurium ST313 Populations from Sub-Saharan Africa.
Published in:
2015
By:
- Okoro, Chinyere K.;
- Barquist, Lars;
- Connor, Thomas R.;
- Harris, Simon R.;
- Clare, Simon;
- Stevens, Mark P.;
- Arends, Mark J.;
- Hale, Christine;
- Kane, Leanne;
- Pickard, Derek J.;
- Hill, Jennifer;
- Harcourt, Katherine;
- Parkhill, Julian;
- Dougan, Gordon;
- Kingsley, Robert A.
Publication type:
Correction Notice
Locally Confined Clonal Complexes of Mycobacterium ulcerans in Two Buruli Ulcer Endemic Regions of Cameroon.
Published in:
PLoS Neglected Tropical Diseases, 2015, v. 9, n. 6, p. 1, doi. 10.1371/journal.pntd.0003802
By:
- Bolz, Miriam;
- Bratschi, Martin W.;
- Kerber, Sarah;
- Minyem, Jacques C.;
- Um Boock, Alphonse;
- Vogel, Moritz;
- Bayi, Pierre Franklin;
- Junghanss, Thomas;
- Brites, Daniela;
- Harris, Simon R.;
- Parkhill, Julian;
- Pluschke, Gerd;
- Lamelas Cabello, Araceli
Publication type:
Article
Correction: Signatures of Adaptation in Human Invasive Salmonella Typhimurium ST313 Populations from Sub-Saharan Africa.
Published in:
2015
By:
- Okoro, Chinyere K.;
- Barquist, Lars;
- Connor, Thomas R.;
- Harris, Simon R.;
- Clare, Simon;
- Stevens, Mark P.;
- Arends, Mark J.;
- Hale, Christine;
- Kane, Leanne;
- Pickard, Derek J.;
- Hill, Jennifer;
- Harcourt, Katherine;
- Parkhill, Julian;
- Dougan, Gordon;
- Kingsley, Robert A.
Publication type:
Correction Notice
Locally Confined Clonal Complexes of Mycobacterium ulcerans in Two Buruli Ulcer Endemic Regions of Cameroon.
Published in:
PLoS Neglected Tropical Diseases, 2015, v. 9, n. 6, p. 1, doi. 10.1371/journal.pntd.0003802
By:
- Bolz, Miriam;
- Bratschi, Martin W.;
- Kerber, Sarah;
- Minyem, Jacques C.;
- Um Boock, Alphonse;
- Vogel, Moritz;
- Bayi, Pierre Franklin;
- Junghanss, Thomas;
- Brites, Daniela;
- Harris, Simon R.;
- Parkhill, Julian;
- Pluschke, Gerd;
- Lamelas Cabello, Araceli
Publication type:
Article
Signatures of Adaptation in Human Invasive Salmonella Typhimurium ST313 Populations from Sub-Saharan Africa.
Published in:
PLoS Neglected Tropical Diseases, 2015, v. 9, n. 3, p. 1, doi. 10.1371/journal.pntd.0003611
By:
- Okoro, Chinyere K.;
- Barquist, Lars;
- Connor, Thomas R.;
- Harris, Simon R.;
- Clare, Simon;
- Stevens, Mark P.;
- Arends, Mark J.;
- Hale, Christine;
- Kane, Leanne;
- Pickard, Derek J.;
- Hill, Jennifer;
- Harcourt, Katherine;
- Parkhill, Julian;
- Dougan, Gordon;
- Kingsley, Robert A.
Publication type:
Article
Signatures of Adaptation in Human Invasive Salmonella Typhimurium ST313 Populations from Sub-Saharan Africa.
Published in:
PLoS Neglected Tropical Diseases, 2015, v. 9, n. 3, p. 1, doi. 10.1371/journal.pntd.0003611
By:
- Okoro, Chinyere K.;
- Barquist, Lars;
- Connor, Thomas R.;
- Harris, Simon R.;
- Clare, Simon;
- Stevens, Mark P.;
- Arends, Mark J.;
- Hale, Christine;
- Kane, Leanne;
- Pickard, Derek J.;
- Hill, Jennifer;
- Harcourt, Katherine;
- Parkhill, Julian;
- Dougan, Gordon;
- Kingsley, Robert A.
Publication type:
Article
Read and assembly metrics inconsequential for clinical utility of whole-genome sequencing in mapping outbreaks.
Published in:
Nature Biotechnology, 2013, v. 31, n. 7, p. 592, doi. 10.1038/nbt.2616
By:
- Harris, Simon R;
- Török, M E;
- Cartwright, Edward J P;
- Quail, Michael A;
- Peacock, Sharon J;
- Parkhill, Julian
Publication type:
Article
Evolution and transmission of drug-resistant tuberculosis in a Russian population.
Published in:
Nature Genetics, 2014, v. 46, n. 3, p. 279, doi. 10.1038/ng.2878
By:
- Casali, Nicola;
- Nikolayevskyy, Vladyslav;
- Balabanova, Yanina;
- Harris, Simon R;
- Ignatyeva, Olga;
- Kontsevaya, Irina;
- Corander, Jukka;
- Bryant, Josephine;
- Parkhill, Julian;
- Nejentsev, Sergey;
- Horstmann, Rolf D;
- Brown, Timothy;
- Drobniewski, Francis
Publication type:
Article
Dense genomic sampling identifies highways of pneumococcal recombination.
Published in:
Nature Genetics, 2014, v. 46, n. 3, p. 305, doi. 10.1038/ng.2895
By:
- Chewapreecha, Claire;
- Harris, Simon R;
- Croucher, Nicholas J;
- Turner, Claudia;
- Marttinen, Pekka;
- Cheng, Lu;
- Pessia, Alberto;
- Aanensen, David M;
- Mather, Alison E;
- Page, Andrew J;
- Salter, Susannah J;
- Harris, David;
- Nosten, Francois;
- Goldblatt, David;
- Corander, Jukka;
- Parkhill, Julian;
- Turner, Paul;
- Bentley, Stephen D
Publication type:
Article
Out-of-Africa migration and Neolithic coexpansion of Mycobacterium tuberculosis with modern humans.
Published in:
Nature Genetics, 2013, v. 45, n. 10, p. 1176, doi. 10.1038/ng.2744
By:
- Comas, Iñaki;
- Coscolla, Mireia;
- Luo, Tao;
- Borrell, Sonia;
- Holt, Kathryn E;
- Kato-Maeda, Midori;
- Parkhill, Julian;
- Malla, Bijaya;
- Berg, Stefan;
- Thwaites, Guy;
- Yeboah-Manu, Dorothy;
- Bothamley, Graham;
- Mei, Jian;
- Wei, Lanhai;
- Bentley, Stephen;
- Harris, Simon R;
- Niemann, Stefan;
- Diel, Roland;
- Aseffa, Abraham;
- Gao, Qian
Publication type:
Article
Emergence and global spread of epidemic healthcare-associated Clostridium difficile.
Published in:
Nature Genetics, 2013, v. 45, n. 1, p. 109, doi. 10.1038/ng.2478
By:
- He, Miao;
- Miyajima, Fabio;
- Roberts, Paul;
- Ellison, Louise;
- Pickard, Derek J;
- Martin, Melissa J;
- Connor, Thomas R;
- Harris, Simon R;
- Fairley, Derek;
- Bamford, Kathleen B;
- D'Arc, Stephanie;
- Brazier, Jon;
- Brown, Derek;
- Coia, John E;
- Douce, Gill;
- Gerding, Dale;
- Kim, Hee Jung;
- Koh, Tse Hsien;
- Kato, Haru;
- Senoh, Mitsutoshi
Publication type:
Article
Intracontinental spread of human invasive Salmonella Typhimurium pathovariants in sub-Saharan Africa.
Published in:
Nature Genetics, 2012, v. 44, n. 11, p. 1215, doi. 10.1038/ng.2423
By:
- Okoro, Chinyere K;
- Kingsley, Robert A;
- Connor, Thomas R;
- Harris, Simon R;
- Parry, Christopher M;
- Al-Mashhadani, Manar N;
- Kariuki, Samuel;
- Msefula, Chisomo L;
- Gordon, Melita A;
- de Pinna, Elizabeth;
- Wain, John;
- Heyderman, Robert S;
- Obaro, Stephen;
- Alonso, Pedro L;
- Mandomando, Inacio;
- MacLennan, Calman A;
- Tapia, Milagritos D;
- Levine, Myron M;
- Tennant, Sharon M;
- Parkhill, Julian
Publication type:
Article
Whole-genome analysis of diverse Chlamydia trachomatis strains identifies phylogenetic relationships masked by current clinical typing.
Published in:
Nature Genetics, 2012, v. 44, n. 4, p. 413, doi. 10.1038/ng.2214
By:
- Harris, Simon R;
- Clarke, Ian N;
- Seth-Smith, Helena M B;
- Solomon, Anthony W;
- Cutcliffe, Lesley T;
- Marsh, Peter;
- Skilton, Rachel J;
- Holland, Martin J;
- Mabey, David;
- Peeling, Rosanna W;
- Lewis, David A;
- Spratt, Brian G;
- Unemo, Magnus;
- Persson, Kenneth;
- Bjartling, Carina;
- Brunham, Robert;
- de Vries, Henry J C;
- Morré, Servaas A;
- Speksnijder, Arjen;
- Bébéar, Cécile M
Publication type:
Article
Optimal enzymes for amplifying sequencing libraries.
Published in:
2012
By:
- Quail, Michael A;
- Otto, Thomas D;
- Gu, Yong;
- Harris, Simon R;
- Skelly, Thomas F;
- McQuillan, Jacqueline A;
- Swerdlow, Harold P;
- Oyola, Samuel O
Publication type:
Letter
Correction: Dynamics and impact of homologous recombination on the evolution of Legionella pneumophila.
Published in:
2017
By:
- David, Sophia;
- Sánchez-Busó, Leonor;
- Harris, Simon R.;
- Marttinen, Pekka;
- Rusniok, Christophe;
- Buchrieser, Carmen;
- Harrison, Timothy G.;
- Parkhill, Julian
Publication type:
Correction Notice
Dynamics and impact of homologous recombination on the evolution of Legionella pneumophila.
Published in:
PLoS Genetics, 2017, v. 13, n. 6, p. 1, doi. 10.1371/journal.pgen.1006855
By:
- David, Sophia;
- Sánchez-Busó, Leonor;
- Harris, Simon R.;
- Marttinen, Pekka;
- Rusniok, Christophe;
- Buchrieser, Carmen;
- Harrison, Timothy G.;
- Parkhill, Julian
Publication type:
Article
RCandy: an R package for visualizing homologous recombinations in bacterial genomes.
Published in:
Bioinformatics, 2022, v. 38, n. 5, p. 1450, doi. 10.1093/bioinformatics/btab814
By:
- Chaguza, Chrispin;
- Tonkin-Hill, Gerry;
- Lo, Stephanie W;
- Hadfield, James;
- Croucher, Nicholas J;
- Harris, Simon R;
- Bentley, Stephen D
Publication type:
Article
BamView: visualizing and interpretation of next-generation sequencing read alignments.
Published in:
Briefings in Bioinformatics, 2013, v. 14, n. 2, p. 203, doi. 10.1093/bib/bbr073
By:
- Carver, Tim;
- Harris, Simon R.;
- Otto, Thomas D.;
- Berriman, Matthew;
- Parkhill, Julian;
- McQuillan, Jacqueline A.
Publication type:
Article
Genomic variations leading to alterations in cell morphology of Campylobacter spp.
Published in:
Scientific Reports, 2016, p. 38303, doi. 10.1038/srep38303
By:
- Esson, Diane;
- Mather, Alison E.;
- Scanlan, Eoin;
- Gupta, Srishti;
- de Vries, Stefan P. W.;
- Bailey, David;
- Harris, Simon R.;
- McKinley, Trevelyan J.;
- Méric, Guillaume;
- Berry, Sophia K.;
- Mastroeni, Pietro;
- Sheppard, Samuel K.;
- Christie, Graham;
- Thomson, Nicholas R.;
- Parkhill, Julian;
- Maskell, Duncan J.;
- Grant, Andrew J.
Publication type:
Article
The First population structure and comparative genomics analysis of Mycobacterium africanum strains from Ghana reveals higher diversity of Lineage 5.
Published in:
International Journal of Mycobacteriology, 2016, v. 5, p. S80, doi. 10.1016/j.ijmyco.2016.09.051
By:
- Otchere, Isaac D.;
- Harris, Simon R.;
- Busso, Sanches L.;
- Asante-Poku, Adwoa;
- Osei-Wusu, Stephen;
- Koram, Kwadwo;
- Parkhill, Julian;
- Gagneux, Sebastien;
- Yeboah-Manu, Dorothy
Publication type:
Article
Spatiotemporal Co-existence of Two Mycobacterium ulcerans Clonal Complexes in the Offin River Valley of Ghana.
Published in:
PLoS Neglected Tropical Diseases, 2016, v. 10, n. 7, p. 1, doi. 10.1371/journal.pntd.0004856
By:
- Lamelas, Araceli;
- Ampah, Kobina Assan;
- Aboagye, Samuel;
- Kerber, Sarah;
- Danso, Emelia;
- Asante-Poku, Adwoa;
- Asare, Prince;
- Parkhill, Julian;
- Harris, Simon R.;
- Pluschke, Gerd;
- Yeboah-Manu, Dorothy;
- Röltgen, Katharina
Publication type:
Article
Genomic Epidemiology of Gonococcal Resistance to Extended-Spectrum Cephalosporins, Macrolides, and Fluoroquinolones in the United States, 2000-2013.
Published in:
2016
By:
- Grad, Yonatan H.;
- Harris, Simon R.;
- Kirkcaldy, Robert D.;
- Green, Anna G.;
- Marks, Debora S.;
- Bentley, Stephen D.;
- Trees, David;
- Lipsitch, Marc
Publication type:
journal article
Genomic Analysis of Isolates From the United Kingdom 2012 Pertussis Outbreak Reveals That Vaccine Antigen Genes Are Unusually Fast Evolving.
Published in:
Journal of Infectious Diseases, 2015, v. 212, n. 2, p. 294, doi. 10.1093/infdis/jiu665
By:
- Sealey, Katie L.;
- Harris, Simon R.;
- Fry, Norman K.;
- Hurst, Laurence D.;
- Gorringe, Andrew R.;
- Parkhill, Julian;
- Preston, Andrew
Publication type:
Article
Inferring patient to patient transmission of Mycobacterium tuberculosis from whole genome sequencing data.
Published in:
BMC Infectious Diseases, 2013, v. 13, n. 1, p. 1, doi. 10.1186/1471-2334-13-110
By:
- Bryant, Josephine M.;
- Schürch, Anita C.;
- van Deutekom, Henk;
- Harris, Simon R.;
- de Beer, Jessica L.;
- de Jager, Victor;
- Kremer, Kristin;
- van Hijum, Sacha A. F. T.;
- Siezen, Roland J.;
- Borgdorff, Martien;
- Bentley, Stephen D.;
- Parkhill, Julian;
- van Soolingen, Dick
Publication type:
Article
Inferring patient to patient transmission of Mycobacterium tuberculosis from whole genome sequencing data.
Published in:
2013
By:
- Bryant, Josephine M;
- Schürch, Anita C;
- van Deutekom, Henk;
- Harris, Simon R;
- de Beer, Jessica L;
- de Jager, Victor;
- Kremer, Kristin;
- van Hijum, Sacha A F T;
- Siezen, Roland J;
- Borgdorff, Martien;
- Bentley, Stephen D;
- Parkhill, Julian;
- van Soolingen, Dick
Publication type:
journal article
Using whole genome sequencing to investigate transmission in a multi-host system: bovine tuberculosis in New Zealand.
Published in:
BMC Genomics, 2017, v. 18, p. 1, doi. 10.1186/s12864-017-3569-x
By:
- Crispell, Joseph;
- Zadoks, Ruth N.;
- Harris, Simon R.;
- Paterson, Brent;
- Collins, Desmond M.;
- de-Lisle, Geoffrey W.;
- Livingstone, Paul;
- Neill, Mark A.;
- Biek, Roman;
- Lycett, Samantha J.;
- Kao, Rowland R.;
- Price-Carter, Marian
Publication type:
Article
Acquisition and loss of virulence-associated factors during genome evolution and speciation in three clades of Bordetella species.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-3112-5
By:
- Linz, Bodo;
- Ivanov, Yury V.;
- Preston, Andrew;
- Brinkac, Lauren;
- Parkhill, Julian;
- Kim, Maria;
- Harris, Simon R.;
- Goodfield, Laura L.;
- Fry, Norman K.;
- Gorringe, Andrew R.;
- Nicholson, Tracy L.;
- Register, Karen B.;
- Losada, Liliana;
- Harvill, Eric T.
Publication type:
Article
The Ess/Type VII secretion system of Staphylococcus aureus shows unexpected genetic diversity.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-2426-7
By:
- Warne, Ben;
- Harkins, Catriona P.;
- Harris, Simon R.;
- Vatsiou, Alexandra;
- Stanley-Wall, Nicola;
- Parkhill, Julian;
- Peacock, Sharon J.;
- Palmer, Tracy;
- Holden, Matthew T. G.
Publication type:
Article
Phylogenomic exploration of the relationships between strains of Mycobacterium avium subspecies paratuberculosis.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-015-2234-5
By:
- Bryant, Josephine M.;
- Thibault, Virginie C.;
- Smith, David G. E.;
- McLuckie, Joyce;
- Heron, Ian;
- Sevilla, Iker A.;
- Biet, Franck;
- Harris, Simon R.;
- Maskell, Duncan J.;
- Bentley, Stephen D.;
- Parkhill, Julian;
- Stevenson, Karen
Publication type:
Article
Co-evolution of genomes and plasmids within Chlamydia trachomatis and the emergence in Sweden of a new variant strain.
Published in:
BMC Genomics, 2009, v. 10, p. 1, doi. 10.1186/1471-2164-10-239
By:
- Seth-Smith, Helena M. B.;
- Harris, Simon R.;
- Persson, Kenneth;
- Marsh, Pete;
- Barron, Andrew;
- Bignell, Alexandra;
- Bjartling, Carina;
- Clark, Louise;
- Cutcliffe, Lesley T.;
- Lambden, Paul R.;
- Lennard, Nicola;
- Lockey, Sarah J.;
- Quail, Michael A.;
- Salim, Omar;
- Skilton, Rachel J.;
- Yibing Wang;
- Holland, Martin J.;
- Parkhill, Julian;
- Thomson, Nicholas R.;
- Clarke, Ian N.
Publication type:
Article
Evidence for several waves of global transmission in the seventh cholera pandemic.
Published in:
Nature, 2011, v. 477, n. 7365, p. 462, doi. 10.1038/nature10392
By:
- Mutreja, Ankur;
- Dong Wook Kim;
- Thomson, Nicholas R.;
- Connor, Thomas R.;
- Je Hee Lee;
- Kariuki, Samuel;
- Croucher, Nicholas J.;
- Seon Young Choi;
- Harris, Simon R.;
- Lebens, Michael;
- Niyogi, Swapan Kumar;
- Eun Jin Kim;
- Ramamurthy, T.;
- Chun, Jongsik;
- Wood, James L. N.;
- Clemens, John D.;
- Czerkinsky, Cecil;
- Nair, G. Balakrish;
- Holmgren, Jan;
- Parkhill, Julian
Publication type:
Article
Genetic variation associated with infection and the environment in the accidental pathogen Burkholderia pseudomallei.
Published in:
Communications Biology, 2019, v. 2, n. 1, p. N.PAG, doi. 10.1038/s42003-019-0678-x
By:
- Chewapreecha, Claire;
- Mather, Alison E.;
- Harris, Simon R.;
- Hunt, Martin;
- Holden, Matthew T. G.;
- Chaichana, Chutima;
- Wuthiekanun, Vanaporn;
- Dougan, Gordon;
- Day, Nicholas P. J.;
- Limmathurotsakul, Direk;
- Parkhill, Julian;
- Peacock, Sharon J.
Publication type:
Article
Genetic variation regulates the activation and specificity of Restriction-Modification systems in Neisseria gonorrhoeae.
Published in:
Scientific Reports, 2019, v. 9, n. 1, p. N.PAG, doi. 10.1038/s41598-019-51102-2
By:
- Sánchez-Busó, Leonor;
- Golparian, Daniel;
- Parkhill, Julian;
- Unemo, Magnus;
- Harris, Simon R.
Publication type:
Article
Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes.
Published in:
Nature Communications, 2016, v. 7, n. 9, p. 12797, doi. 10.1038/ncomms12797
By:
- Lees, John A.;
- Vehkala, Minna;
- Välimäki, Niko;
- Harris, Simon R.;
- Chewapreecha, Claire;
- Croucher, Nicholas J.;
- Marttinen, Pekka;
- Davies, Mark R.;
- Steer, Andrew C.;
- Tong, Steven Y. C.;
- Honkela, Antti;
- Parkhill, Julian;
- Bentley, Stephen D.;
- Corander, Jukka
Publication type:
Article
Chlamydia trachomatis from Australian Aboriginal people with trachoma are polyphyletic composed of multiple distinctive lineages.
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Nature Communications, 2016, v. 7, n. 2, p. 10688, doi. 10.1038/ncomms10688
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- Sarovich, Derek S.;
- Tong, Steven Y. C.;
- Clarke, Ian N.;
- Thomson, Nicholas R.;
- Giffard, Philip M.
Publication type:
Article
Capturing the cloud of diversity reveals complexity and heterogeneity of MRSA carriage, infection and transmission.
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Nature Communications, 2015, v. 6, n. 3, p. 6560, doi. 10.1038/ncomms7560
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- Harris, Simon R.;
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- Peacock, Sharon J.;
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- Parkhill, Julian;
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Publication type:
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Circlator: automated circularization of genome assemblies using long sequencing reads.
Published in:
Genome Biology, 2015, v. 16, p. 294, doi. 10.1186/s13059-015-0849-0
By:
- Hunt, Martin;
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Publication type:
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Evolutionary dynamics of methicillin-resistant Staphylococcus aureus within a healthcare system.
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Genome Biology, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s13059-015-0643-z
By:
- Li-Yang Hsu;
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- Grubb, Warren B.;
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- Parkhill, Julian;
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Publication type:
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Loss of Genomic Diversity in a Neisseria meningitidis Clone Through a Colonization Bottleneck.
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Genome Biology & Evolution, 2018, v. 10, n. 8, p. 2102, doi. 10.1093/gbe/evy152
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- Harris, Simon R;
- Parkhill, Julian
Publication type:
Article
Evidence for Soft Selective Sweeps in the Evolution of Pneumococcal Multidrug Resistance and Vaccine Escape.
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Genome Biology & Evolution, 2014, v. 6, n. 7, p. 1589, doi. 10.1093/gbe/evu120
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Publication type:
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