SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology

Aaron Petkau; Philip Mabon; Cameron Sieffert; Natalie C. Knox; Jennifer Cabral; Mariam Iskander; Mark Iskander; Kelly Weedmark; Rahat Zaheer; Lee S. Katz; Celine Nadon; Aleisha Reimer; Eduardo Taboada; Robert G. Beiko; William Hsiao; Fiona Brinkman; Morag Graham; Gary Van Domselaar

doi:10.1099/mgen.0.000116

SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology

Aaron Petkau, Philip Mabon, Cameron Sieffert, Natalie C. Knox, Jennifer Cabral, Mariam Iskander, Mark Iskander, Kelly Weedmark, Rahat Zaheer, Lee S. Katz, Celine Nadon, Aleisha Reimer, Eduardo Taboada, Robert G. Beiko, William Hsiao, Fiona Brinkman, Morag Graham, Gary Van Domselaar

Multidisciplinary

Research output: Contribution to journal › Article › peer-review

115 Citations (Scopus)

Original language	English
Pages (from-to)	e000116
Journal	Microbial genomics
Volume	3
Issue number	6
DOIs	https://doi.org/10.1099/mgen.0.000116
Publication status	Published - Jun 30 2017

ASJC Scopus Subject Areas

Genetics
Molecular Biology
Epidemiology
Microbiology

Keywords

bacterial genomics
bioinformatics
genomic epidemiology
infectious disease surveillance
phylogenomics
single nucleotide variation detection

UN SDGs

This output contributes to the following UN Sustainable Development Goals (SDGs)

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10.1099/mgen.0.000116

Cite this

Petkau, A., Mabon, P., Sieffert, C., Knox, N. C., Cabral, J., Iskander, M., Iskander, M., Weedmark, K., Zaheer, R., Katz, L. S., Nadon, C., Reimer, A., Taboada, E., Beiko, R. G., Hsiao, W., Brinkman, F., Graham, M., & Van Domselaar, G. (2017). SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology. Microbial genomics, 3(6), e000116. https://doi.org/10.1099/mgen.0.000116

Petkau, A, Mabon, P, Sieffert, C, Knox, NC, Cabral, J, Iskander, M, Iskander, M, Weedmark, K, Zaheer, R, Katz, LS, Nadon, C, Reimer, A, Taboada, E, Beiko, RG, Hsiao, W, Brinkman, F, Graham, M & Van Domselaar, G 2017, 'SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology', Microbial genomics, vol. 3, no. 6, pp. e000116. https://doi.org/10.1099/mgen.0.000116

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keywords = "bacterial genomics, bioinformatics, genomic epidemiology, infectious disease surveillance, phylogenomics, single nucleotide variation detection",

author = "Aaron Petkau and Philip Mabon and Cameron Sieffert and Knox, {Natalie C.} and Jennifer Cabral and Mariam Iskander and Mark Iskander and Kelly Weedmark and Rahat Zaheer and Katz, {Lee S.} and Celine Nadon and Aleisha Reimer and Eduardo Taboada and Beiko, {Robert G.} and William Hsiao and Fiona Brinkman and Morag Graham and {Van Domselaar}, Gary",

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month = jun,

day = "30",

doi = "10.1099/mgen.0.000116",

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T2 - a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology

AU - Petkau, Aaron

AU - Mabon, Philip

AU - Sieffert, Cameron

AU - Knox, Natalie C.

AU - Cabral, Jennifer

AU - Iskander, Mariam

AU - Iskander, Mark

AU - Weedmark, Kelly

AU - Zaheer, Rahat

AU - Katz, Lee S.

AU - Nadon, Celine

AU - Reimer, Aleisha

AU - Taboada, Eduardo

AU - Beiko, Robert G.

AU - Hsiao, William

AU - Brinkman, Fiona

AU - Graham, Morag

AU - Van Domselaar, Gary

PY - 2017/6/30

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KW - bacterial genomics

KW - bioinformatics

KW - genomic epidemiology

KW - infectious disease surveillance

KW - phylogenomics

KW - single nucleotide variation detection

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JO - Microbial genomics

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SNVPhyl: a single nucleotide variant phylogenomics pipeline for microbial genomic epidemiology

ASJC Scopus Subject Areas

Keywords

UN SDGs

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