ArticleBMC bioinformatics2012
PHYLOViZ: phylogenetic inference and data visualization for sequence based typing methods.
Article in BMC bioinformatics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 317 papers.
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Who cites it
317 citing papers in PubMed.
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- Whole-genome sequencing-based typing methods forMicrobiology spectrum · 2026Article
- Whole-genome sequencing reveals genetic diversity and transmission dynamics ofMicrobial genomics · 2026Article
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- Emergence of methicillin resistantFrontiers in veterinary science · 2026Article
- Clonal Expansion ofInfection and drug resistance · 2026Article
- Longitudinal analysis of serotypes, virulence factors, and MLST profiles ofJournal of veterinary science · 2026Article
- Whole-genome and pan-genome analyses reveal genomic differences among nontypeableFrontiers in cellular and infection microbiology · 2026Article
- Genomic Evolution of the Increasing Prevalent Carbapenem-Resistant Hypervirulent ST15International journal of microbiology · 2026Article
- Whole genome sequencing of ceftolozane/tazobactam-resistant, XDRFrontiers in cellular and infection microbiology · 2026Article
- Serotypes, sequence types, and erythromycin resistance of maternal colonizing group BFrontiers in pediatrics · 2026Article
- Emergence and characteristics of hypervirulent Acinetobacter baumannii.BMC infectious diseases · 2025Article
- Evaluation of Streptococcus mutans strains possessing genes encoding collagen-binding proteins in the Japanese population.BMC oral health · 2025Article
- Molecular characterization of antimicrobial resistance genes and plasmid profiles in enterobacterales isolated from urinary tract infections in rural outpatient women in Otavalo, Ecuador.BMC infectious diseases · 2025Article
- Large- and small-scale population structure ofApplied and environmental microbiology · 2025Article
- A new approach for establishing multilocus sequence typing scheme: Staphylococcus capitis as an example.BMC microbiology · 2025Article
- Multigene Typing of Croatian 'Pathogens (Basel, Switzerland) · 2025Article
257 more citing papers are in PubMed but not listed here.
Corrections and comments
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Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWith the decrease of DNA sequencing costs, sequence-based typing methods are rapidly becoming the gold standard for epidemiological surveillance. These methods provide reproducible and comparable results needed for a global scale bacterial population analysis, while retaining their usefulness for local epidemiological surveys. Online databases that collect the generated allelic profiles and associated epidemiological data are available but this wealth of data remains underused and are frequently poorly annotated since no user-friendly tool exists to analyze and explore it.
resultsPHYLOViZ is platform independent Java software that allows the integrated analysis of sequence-based typing methods, including SNP data generated from whole genome sequence approaches, and associated epidemiological data. goeBURST and its Minimum Spanning Tree expansion are used for visualizing the possible evolutionary relationships between isolates. The results can be displayed as an annotated graph overlaying the query results of any other epidemiological data available.
conclusionsPHYLOViZ is a user-friendly software that allows the combined analysis of multiple data sources for microbial epidemiological and population studies. It is freely available at http://www.phyloviz.net.
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