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Number of items: 51.
2020
Achtman, Mark, Zhou, Zhemin, Alikhan, Nabil-Fareed, Tyne, William, Parkhill, Julian, Cormican, Martin, Chiou, Chien-Shun, Torpdahl, Mia, Litrup, Eva, Prendergast, Deirdre M. et al.
(2020)
Genomic diversity of Salmonella enterica - The UoWUCC 10K genomes project.
Wellcome Open Research, 5
.
223.
doi:10.12688/wellcomeopenres.16291.2
ISSN 2398-502X.
2019
Agama Study Group (Including: Zhou, Zhemin, Alikhan, Nabil-Fareed, Mohamed, Khaled, Fan, Yulei, Achtman, Mark and Tyne, William). (2019) The EnteroBase user's guide, with case studies on Salmonella transmissions, Yersinia pestis phylogeny and Escherichia core genomic diversity. Genome Research . 251678.119. doi:10.1101/gr.251678.119 ISSN 1088-9051.
Zhou, Zhemin, Alikhan, Nabil-Fareed, Mohamed, Khaled, Fan, Yulei and Achtman, Mark (2019) Data for The user’s guide to comparative genomics with EnteroBase. [Dataset]
Chen, Lihong, Song, Nan, Liu, Bo, Zhang, Nan, Alikhan, Nabil-Fareed, Zhou, Zhemin, Zhou, Yanyan, Zhou, Siyu, Zheng, Dandan, Chen, Mingxing, Hapeshi, Alexia, Healey, Joseph R. J., Waterfield, Nicholas R., Yang, Jian and Yang, Guowei (2019) Genome-wide identification and characterization of a superfamily of bacterial extracellular contractile injection systems. Cell Reports, 29 (2). 511-521.e2. doi:10.1016/j.celrep.2019.08.096 ISSN 2211-1247.
2018
Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Cátia, Francisco, Alexandre P. , Carriço, João André and Achtman, Mark (2018) GrapeTree : visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Research, 28 (10). pp. 1395-1404. doi:10.1101/gr.232397.117 ISSN 1088-9051.
Zhou, Zhemin, Lundstrøm, Inge, Tran-Dien, Alicia, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Christophersen, Axel, Quince, Christopher , Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon Y. W., Gilbert, M. Thomas P. and Achtman, Mark (2018) Pan-genome analysis of ancient and modern Salmonella enterica demonstrates genomic stability of the invasive Para C lineage for millennia. Current Biology, 28 (15). pp. 2420-2428. doi:10.1016/j.cub.2018.05.058 ISSN 0960-9822.
Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Cátia, Francisco, Alexandre P., Carriço, João André and Achtman, Mark (2018) GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Research, 28 (9). pp. 1395-1404. doi:10.1101/gr.232397.117 ISSN 1088-9051.
Pearce, Madison E., Alikhan, Nabil-Fareed, Dallman, Timothy J., Zhou, Zhemin, Grant, Kathie and Maiden, Martin C. J. (2018) Comparative analysis of core genome MLST and SNP typing within a European Salmonella serovar Enteritidis outbreak. International Journal of Food Microbiology, 274 . pp. 1-11. doi:10.1016/j.ijfoodmicro.2018.02.023 ISSN 1879-3460.
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica. Archive package of additional figures, tables and data. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 1. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 2. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 3. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 4. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 5. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 6. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 7. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Concoct 8. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 1. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 2. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 3. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 4. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 5. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 6. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 7. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC Pan-genome 8. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC genome SNPs 1. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC genome SNPs 2. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC genome SNPs 3. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ParaC genome SNPs 4. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Salmonella supertree 1. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Salmonella supertree 2. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: Salmonella supertree 3. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ancestral reconstruction 1. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: ancestral reconstruction 2. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: date estimation 1. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: date estimation 2. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: date estimation 3. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: date estimation 4. [Dataset]
Zhou, Zhemin, Lundstrøm, Inge, Dien, Alicia Tran, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Quince, Christopher , Christophersen, Axel, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon, Gilbert, M. Thomas P. and Achtman, Mark (2018) Data for Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica: workflow. [Dataset]
Zhou, Zhemin, Luhmann, Nina, Alikhan, Nabil-Fareed, Quince, Christopher and Achtman, Mark (2018) Accurate reconstruction of microbial strains from metagenomic sequencing using representative reference genomes. In: RECOMB 2018 : International Conference on Research in Computational Molecular Biology, Paris, 21-24 Apr 2018. Published in: Lecture Notes in Computer Science, 10812 pp. 225-240. ISBN 9783319899299. doi:10.1007/978-3-319-89929-9_15 ISSN 0302-9743.
Alikhan, Nabil-Fareed, Zhou, Zhemin, Sergeant, Martin J. and Achtman, Mark (2018) A genomic overview of the population structure of Salmonella. PLoS Genetics, 14 (4). e1007261. doi:10.1371/journal.pgen.1007261 ISSN 1553-7390.
2017
Zhou, Zhemin, Alikhan, Nabil-Fareed, Sergeant, Martin J., Luhmann, Nina, Vaz, Catia, Francisco, Alexandre P., Carrico, Joao Andre and Achtman, Mark (2017) GrapeTree : visualization of core genomic relationships among 100,000 bacterial pathogens. Working Paper. BioRxiv: Cold Spring Harbour.
Zhou, Zhemin, Luhmann, Nina, Alikhan, Nabil-Fareed, Quince, Christopher and Achtman, Mark (2017) Accurate reconstruction of microbial strains using representative reference genomes. Working Paper. BioRxiv: Cold Spring Harbour.
Page, Andrew J., Alikhan, Nabil-Fareed, Carleton, Heather A., Seemann, Torsten, Keane, Jacqueline A. and Katz, Lee S. (2017) Comparison of classical multi-locus sequence typing software for next-generation sequencing data. Microbial Genomics, 3 (8). e000124. doi:10.1099/mgen.0.000124 ISSN 2057-5858.
Zhou, Zhemin, Lundstrøm, Inge, Tran-Dien, Alicia, Duchêne, Sebastián, Alikhan, Nabil-Fareed, Sergeant, Martin J., Langridge, Gemma, Fotakis, Anna K., Nair, Satheesh, Stenøien, Hans K., Hamre, Stian S., Casjens, Sherwood, Christophersen, Axel, Quince, Christopher, Thomson, Nicholas R., Weill, François-Xavier, Ho, Simon Y. W., Gilbert, M. Thomas P. and Achtman, Mark (2017) Millennia of genomic stability within the invasive Para C Lineage of Salmonella enterica. Working Paper. BioRxiv: Cold Spring Harbour.
2016
Wailan, Alexander M., Sidjabat, Hanna E., Yam, Wan Keat, Alikhan, Nabil-Fareed, Petty, Nicola K., Sartor, Anna L., Williamson, Deborah A., Forde, Brian M., Schembri, Mark A., Beatson, Scott A., Paterson, David L., Walsh, Timothy R. and Partridge, Sally R. (2016) Mechanisms involved in acquisition of blaNDM genes by IncA/C2 and IncFIIY plasmids. Antimicrobial Agents and Chemotherapy, 60 (7). pp. 4082-4088. doi:10.1128/AAC.00368-16 ISSN 0066-4804.
2015
Beatson, Scott A., Ben Zakour, Nouri L., Totsika, Makrina, Forde, Brian M., Watts, Rebecca E., Mabbett, Amanda N., Szubert, Jan M., Sarkar, Sohinee, Phan, Minh-Duy, Peters, Kate M. et al.
(2015)
Data for Molecular analysis of asymptomatic Bacteriuria Escherichia coli strain VR50 reveals adaptation to the urinary tract by gene acquisition.
[Dataset]
Beatson, Scott A., Ben Zakour, Nouri L., Totsika, Makrina, Forde, Brian M., Watts, Rebecca E., Mabbett, Amanda N., Szubert, Jan M., Sarkar, Sohinee, Phan, Minh-Duy, Peters, Kate M. et al.
(2015)
Molecular analysis of asymptomatic bacteriuria Escherichia coli strain VR50 reveals adaptation to the urinary tract by gene acquisition.
Infection and Immunity, Volume 83
(Number 5).
pp. 1749-1764.
doi:10.1128/IAI.02810-14
ISSN 0019-9567.
2011
Alikhan, Nabil-Fareed, Petty, Nicola K., Ben Zakour, Nouri L. and Beatson, Scott A. (2011) BLAST Ring Image Generator (BRIG) : simple prokaryote genome comparisons. BMC Genomics, Volume 12 (Number 1). Article number 402. doi:10.1186/1471-2164-12-402 ISSN 1471-2164.
Beatson, S. A., das Gracas de Luna, M., Bachmann, N. L., Alikhan, Nabil-Fareed, Hanks, K. R., Sullivan, M. J., Wee, B. A., Freitas-Almeida, A. C., dos Santos, P. A., de Melo, J. T. B., Squire, D. J. P., Cunningham, A. F., Fitzgerald, J. R. and Henderson, I. R. (2011) Genome sequence of the emerging pathogen aeromonas caviae. Journal of Bacteriology, Volume 193 (Number 5). pp. 1286-1287. doi:10.1128/JB.01337-10 ISSN 0021-9193.
Beatson, S. A., das Gracas de Luna, M., Bachmann, N. L. , Alikhan, Nabil-Fareed, Hanks, K. R., Sullivan, M. J., Wee, B. A., Freitas-Almeida, A. C., dos Santos, P. A., de Melo, J. T. B., Squire, D. J. P., Cunningham, A. F., Fitzgerald, J. R. and Henderson, I. R. (2011) Genome sequence of the emerging pathogen aeromonas caviae. Journal of Bacteriology, 193 (5). pp. 1286-1287. doi:10.1128/JB.01337-10 ISSN 0021-9193.
This list was generated on Fri Jun 9 15:07:48 2023 BST.
