Works by Harris, Simon R.

Results: 97

Reference-Free Variant Calling with Local Graph Construction with ska lo (SKA).

Published in:

Molecular Biology & Evolution, 2025, v. 42, n. 4, p. 1, doi. 10.1093/molbev/msaf077

By:

Derelle, Romain;
Madon, Kieran;
Hellewell, Joel;
Rodríguez-Bouza, Víctor;
Arinaminpathy, Nimalan;
Lalvani, Ajit;
Croucher, Nicholas J;
Harris, Simon R;
Lees, John A;
Chindelevitch, Leonid

Publication type:

Article

Evolutionary dynamics of methicillin-resistant Staphylococcus aureus within a healthcare system.

Published in:

Genome Biology, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s13059-015-0643-z

By:

Li-Yang Hsu;
Harris, Simon R.;
Chlebowicz, Monika A.;
Lindsay, Jodi A.;
Tse-Hsien Koh;
Krishnan, Prabha;
Thean-Yen Tan;
Pei-Yun Hon;
Grubb, Warren B.;
Bentley, Stephen D.;
Parkhill, Julian;
Peacock, Sharon J.;
Holden, Matthew T. G.

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

The MITRE trial protocol: a study to evaluate the microbiome as a biomarker of efficacy and toxicity in cancer patients receiving immune checkpoint inhibitor therapy.

Published in:

2022

By:

Thompson, Nicola A.;
Stewart, Grant D.;
Welsh, Sarah J.;
Doherty, Gary J.;
Robinson, Matthew J.;
Neville, B. Anne;
Vervier, Kevin;
Harris, Simon R.;
Adams, David J.;
Dalchau, Katy;
Bruce, David;
Demiris, Nikolaos;
Lawley, Trevor D.;
Corrie, Pippa G.

Publication type:

journal article

Playing fast and loose with mutation.

Published in:

Nature Reviews Microbiology, 2013, v. 11, n. 12, p. 822, doi. 10.1038/nrmicro3164

By:

Mather, Alison E.;
Harris, Simon R.

Publication type:

Article

Whole Genome Sequence Analysis of a Large Isoniazid-Resistant Tuberculosis Outbreak in London: A Retrospective Observational Study.

Published in:

2016

By:

Casali, Nicola;
Broda, Agnieszka;
Harris, Simon R.;
Parkhill, Julian;
Brown, Timothy;
Drobniewski, Francis

Publication type:

journal 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

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

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

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

Loss of Genomic Diversity in a Neisseria meningitidis Clone Through a Colonization Bottleneck.

Published in:

Genome Biology & Evolution, 2018, v. 10, n. 8, p. 2102, doi. 10.1093/gbe/evy152

By:

Lamelas, Araceli;
Hamid, Abdul-Wahab M;
Dangy, Jean-Pierre;
Hauser, Julia;
Jud, Maja;
Röltgen, Katharina;
Hodgson, Abraham;
Junghanss, Thomas;
Harris, Simon R;
Parkhill, Julian

Publication type:

Article

Evidence for Soft Selective Sweeps in the Evolution of Pneumococcal Multidrug Resistance and Vaccine Escape.

Published in:

Genome Biology & Evolution, 2014, v. 6, n. 7, p. 1589, doi. 10.1093/gbe/evu120

By:

Croucher, Nicholas J.;
Chewapreecha, Claire;
Hanage, William P.;
Harris, Simon R.;
McGee, Lesley;
van der Linden, Mark;
Song, Jae-Hoon;
Ko, Kwan Soo;
de Lencastre, Herminia;
Turner, Claudia;
Yang, Fan;
Sá-Leão, Raquel;
Beall, Bernard;
Klugman, Keith P.;
Parkhill, Julian;
Turner, Paul;
Bentley, Stephen D.

Publication type:

Article

The Evolutionary Path to Extraintestinal Pathogenic, Drug-Resistant Escherichia coli Is Marked by Drastic Reduction in Detectable Recombination within the Core Genome.

Published in:

2013

By:

McNally, Alan;
Cheng, Lu;
Harris, Simon R.;
Corander, Jukka

Publication type:

Art Reproduction

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

Single-molecule sequencing reveals the molecular basis of multidrug-resistance in ST772 methicillin-resistant Staphylococcus aureus.

Published in:

BMC Genomics, 2015, v. 16, n. 1, p. 1, doi. 10.1186/s12864-015-1599-9

By:

Steinig, Eike J.;
Andersson, Patiyan;
Harris, Simon R.;
Sarovich, Derek S.;
Manoharan, Anand;
Coupland, Paul;
Holden, Matthew T. G.;
Parkhill, Julian;
Bentley, Stephen D.;
Robinson, D. Ashley;
Tong, Steven Y. C.

Publication type:

Article

Comparative genome analysis of Wolbachia strain wAu.

Published in:

BMC Genomics, 2014, v. 15, n. 1, p. 928, doi. 10.1186/1471-2164-15-928

By:

Sutton, Elizabeth R.;
Harris, Simon R.;
Parkhill, Julian;
Sinkins, Steven P.

Publication type:

Article

A tale of three next generation sequencing platforms: comparison of Ion Torrent, Pacific Biosciences and Illumina MiSeq sequencers.

Published in:

BMC Genomics, 2012, v. 13, n. 1, p. 341, doi. 10.1186/1471-2164-13-341

By:

Quail, Michael A.;
Smith, Miriam;
Coupland, Paul;
Otto, Thomas D.;
Harris, Simon R.;
Connor, Thomas R.;
Bertoni, Anna;
Swerdlow, Harold P.;
Yong Gu

Publication type:

Article

Variable recombination dynamics during the emergence, transmission and 'disarming' of a multidrug-resistant pneumococcal clone.

Published in:

BMC Biology, 2014, v. 12, n. 1, p. 1, doi. 10.1186/1741-7007-12-49

By:

Croucher, Nicholas J.;
Hanage, William P.;
Harris, Simon R.;
McGee, Lesley;
van der Linden, Mark;
de Lencastre, Herminia;
Sá-Leão, Raquel;
Jae-Hoon Song;
Kwan Soo Ko;
Beall, Bernard;
Klugman, Keith P.;
Parkhill, Julian;
Tomasz, Alexander;
Kristinsson, Karl G.;
Bentley, Stephen D.

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

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;
De Silva, Nishadi;
Otto, Thomas D.;
Parkhill, Julian;
Keane, Jacqueline A.;
Harris, Simon R.

Publication type:

Article

Seeding and Establishment of Legionella pneumophila in Hospitals: Implications for Genomic Investigations of Nosocomial Legionnaires' Disease.

Published in:

Clinical Infectious Diseases, 2017, v. 64, n. 9, p. 1251, doi. 10.1093/cid/cix153

By:

David, Sophia;
Afshar, Baharak;
Mentasti, Massimo;
Ginevra, Christophe;
Podglajen, Isabelle;
Harris, Simon R.;
Chalker, Victoria J.;
Jarraud, Sophie;
Harrison, Timothy G.;
Parkhill, Julian

Publication type:

Article

Genomic Investigations Unmask Mycoplasma amphoriforme, a New Respiratory Pathogen.

Published in:

Clinical Infectious Diseases, 2015, v. 60, n. 3, p. 381, doi. 10.1093/cid/ciu820

By:

Gillespie, Stephen H.;
Clare L. Ling;
Oravcova, Katarina;
Pinheiro, Miguel;
Wells, Louise;
Bryant, Josephine M.;
McHugh, Timothy D.;
Bébéar, Cecile;
Webster, David;
Harris, Simon R.;
Seth-Smith, Helena M. B.;
Thomson, Nicholas R.

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

Generating whole bacterial genome sequences of low-abundance species from complex samples with IMS-MDA.

Published in:

Nature Protocols, 2013, v. 8, n. 12, p. 2404, doi. 10.1038/nprot.2013.147

By:

Seth-Smith, Helena M B;
Harris, Simon R;
Scott, Paul;
Parmar, Surendra;
Marsh, Peter;
Unemo, Magnus;
Clarke, Ian N;
Parkhill, Julian;
Thomson, Nicholas R

Publication type:

Article

Molecular epidemiology and whole genome sequencing analysis of clinical Mycobacterium bovis from Ghana.

Published in:

PLoS ONE, 2019, v. 14, n. 3, p. 1, doi. 10.1371/journal.pone.0209395

By:

Otchere, Isaac Darko;
van Tonder, Andries J.;
Asante-Poku, Adwoa;
Sánchez-Busó, Leonor;
Coscollá, Mireia;
Osei-Wusu, Stephen;
Asare, Prince;
Aboagye, Samuel Yaw;
Ekuban, Samuel Acquah;
Yahayah, Abdallah Iddrisu;
Forson, Audrey;
Baddoo, Akosua;
Laryea, Clement;
Parkhill, Julian;
Harris, Simon R.;
Gagneux, Sebastien;
Yeboah-Manu, Dorothy

Publication type:

Article

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

Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis.

Published in:

PLoS Genetics, 2017, v. 13, n. 2, p. 1, doi. 10.1371/journal.pgen.1006508

By:

Skwark, Marcin J.;
Croucher, Nicholas J.;
Puranen, Santeri;
Chewapreecha, Claire;
Pesonen, Maiju;
Xu, Ying Ying;
Turner, Paul;
Harris, Simon R.;
Beres, Stephen B.;
Musser, James M.;
Parkhill, Julian;
Bentley, Stephen D.;
Aurell, Erik;
Corander, Jukka

Publication type:

Article

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

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

Global Scale Dissemination of ST93: A Divergent <italic>Staphylococcus aureus</italic> Epidemic Lineage That Has Recently Emerged From Remote Northern Australia.

Published in:

Frontiers in Microbiology, 2018, p. N.PAG, doi. 10.3389/fmicb.2018.01453

By:

van Hal, Sebastiaan J.;
Steinig, Eike J.;
Andersson, Patiyan;
Holden, Matthew T. G.;
Harris, Simon R.;
Nimmo, Graeme R.;
Williamson, Deborah A.;
Heffernan, Helen;
Ritchie, S. R.;
Kearns, Angela M.;
Ellington, Matthew J.;
Dickson, Elizabeth;
de Lencastre, Herminia;
Coombs, Geoffrey W.;
Bentley, Stephen D.;
Parkhill, Julian;
Holt, Deborah C.;
Giffard, Phillip M.;
Tong, Steven Y. C.

Publication type:

Article

The Shape of Supertrees to Come: Tree Shape Related Properties of Fourteen Supertree Methods.

Published in:

Systematic Biology, 2005, v. 54, n. 3, p. 419, doi. 10.1080/10635150590949832

By:

Wilkinson, Mark;
Cotton, James;
Creevey, Chris;
Eulenstein, Oliver;
Harris, Simon R.;
Lapointe, Francois-Joseph;
Levasseur, Claudine;
Mcinerney, James;
Pisani, Davide;
Thorley, Joseph

Publication type:

Article

Phylogenetic Methods and Aetosaur Interrelationships: A Rejoinder.

Published in:

Systematic Biology, 2003, v. 52, n. 6, p. 851, doi. 10.1093/sysbio/52.6.851

By:

Harris, Simon R.;
Gower, David J.;
Wilkinson, Mark

Publication type:

Article

Intraorganismal Homology, Character Construction, and the Phylogeny of Aetosaurian Archosaurs (Reptilia, Diapsida).

Published in:

Systematic Biology, 2003, v. 52, n. 2, p. 239, doi. 10.1080/10635150309341

By:

Harris, Simon R.;
Gower, David J.;
Wilkinson, Mark

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

Evaluation of parameters affecting performance and reliability of machine learning-based antibiotic susceptibility testing from whole genome sequencing data.

Published in:

PLoS Computational Biology, 2019, v. 15, n. 9, p. 1, doi. 10.1371/journal.pcbi.1007349

By:

Hicks, Allison L.;
Wheeler, Nicole;
Sánchez-Busó, Leonor;
Rakeman, Jennifer L.;
Harris, Simon R.;
Grad, Yonatan H.

Publication type:

Article

The novel 2016 WHO Neisseria gonorrhoeae reference strains for global quality assurance of laboratory investigations: phenotypic, genetic and reference genome characterization.

Published in:

2016

By:

Unemo, Magnus;
Golparian, Daniel;
Sánchez-Busó, Leonor;
Grad, Yonatan;
Jacobsson, Susanne;
Makoto Ohnishi;
Lahra, Monica M.;
Limnios, Athena;
Sikora, Aleksandra E.;
Wi, Teodora;
Harris, Simon R.;
Ohnishi, Makoto

Publication type:

journal article

Phylogeny, resistome and mobile genetic elements of emergent OXA-48 and OXA-245 Klebsiella pneumoniae clones circulating in Spain.

Published in:

2016

By:

Pérez-Vázquez, María;
Oteo, Jesús;
García-Cobos, Silvia;
Aracil, Belén;
Harris, Simon R.;
Ortega, Adriana;
Fontanals, Dionisia;
Hernández, Juan Manuel;
Solís, Sonia;
Campos, José;
Dougan, Gordon;
Kingsley, Robert A.

Publication type:

journal article

Early insights into the potential of the Oxford Nanopore MinION for the detection of antimicrobial resistance genes.

Published in:

2015

By:

Judge, Kim;
Harris, Simon R.;
Reuter, Sandra;
Parkhill, Julian;
Peacock, Sharon J.

Publication type:

journal article

Zero tolerance for healthcare-associated MRSA bacteraemia: is it realistic?

Published in:

2014

By:

Török, M Estée;
Harris, Simon R;
Cartwright, Edward J P;
Raven, Kathy E;
Brown, Nicholas M;
Allison, Michael E D;
Greaves, Daniel;
Quail, Michael A;
Limmathurotsakul, Direk;
Holden, Matthew T G;
Parkhill, Julian;
Peacock, Sharon J

Publication type:

journal article

Zero tolerance for healthcare-associated MRSA bacteraemia: is it realistic?

Published in:

Journal of Antimicrobial Chemotherapy (JAC), 2014, v. 69, n. 8, p. 2238

By:

Török, M. Estée;
Harris, Simon R.;
Cartwright, Edward J. P.;
Raven, Kathy E.;
Brown, Nicholas M.;
Allison, Michael E. D.;
Greaves, Daniel;
Quail, Michael A.;
Limmathurotsakul, Direk;
Holden, Matthew T. G.;
Parkhill, Julian;
Peacock, Sharon J.

Publication type:

Article

Genomic identification of a novel co-trimoxazole resistance genotype and its prevalence amongst Streptococcus pneumoniae in Malawi.

Published in:

Journal of Antimicrobial Chemotherapy (JAC), 2014, v. 69, n. 2, p. 368, doi. 10.1093/jac/dkt384

By:

Cornick, Jennifer E.;
Harris, Simon R.;
Parry, Christopher M.;
Moore, Michael J.;
Jassi, Chikondi;
Kamng'ona, Arox;
Kulohoma, Benard;
Heyderman, Robert S.;
Bentley, Stephen D.;
Everett, Dean B.

Publication type:

Article

Artemis: an integrated platform for visualization and analysis of high-throughput sequence-based experimental data.

Published in:

Bioinformatics, 2012, v. 28, n. 4, p. 464, doi. 10.1093/bioinformatics/btr703

By:

Carver, Tim;
Harris, Simon R.;
Berriman, Matthew;
Parkhill, Julian;
McQuillan, Jacqueline A.

Publication type:

Article

The Genome of Mycobacterium Africanum West African 2 Reveals a Lineage-Specific Locus and Genome Erosion Common to the M. tuberculosis Complex.

Published in:

PLoS Neglected Tropical Diseases, 2012, v. 6, n. 2, p. 1, doi. 10.1371/journal.pntd.0001552

By:

Bentley, Stephen D.;
Comas, Iñaki;
Bryant, Josephine M.;
Walker, Danielle;
Smith, Noel H.;
Harris, Simon R.;
Thurston, Scott;
Gagneux, Sebastien;
Wood, Jonathan;
Antonio, Martin;
Quail, Michael A.;
Gehre, Florian;
Adegbola, Richard A.;
Parkhill, Julian;
de Jong, Bouke C.

Publication type:

Article

The Genome of Mycobacterium Africanum West African 2 Reveals a Lineage-Specific Locus and Genome Erosion Common to the M. tuberculosis Complex.

Published in:

PLoS Neglected Tropical Diseases, 2012, v. 6, n. 2, p. 1, doi. 10.1371/journal.pntd.0001552

By:

Bentley, Stephen D.;
Comas, Iñaki;
Bryant, Josephine M.;
Walker, Danielle;
Smith, Noel H.;
Harris, Simon R.;
Thurston, Scott;
Gagneux, Sebastien;
Wood, Jonathan;
Antonio, Martin;
Quail, Michael A.;
Gehre, Florian;
Adegbola, Richard A.;
Parkhill, Julian;
Jong, Bouke C. De

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