Phandango: An interactive viewer for bacterial population genomics

Bioinformatics

Volumn 34, Issue 2, 2018, Pages 292-293

  Hadfield, James ^a   Croucher, Nicholas J ^b   Goater, Richard J ^a   Abudahab, Khalil ^a   Aanensen, David M ^a,b   Harris, Simon R ^a  

^a WELLCOME TRUST SANGER INSTITUTE   (United Kingdom)

^b IMPERIAL COLLEGE LONDON   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; GENOMICS; RUNNING; WEB BROWSER;

EID: 85040569696     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btx610     Document Type: Article

References (8)

1. Argimón S, et al, 2016 Microreact: visualizing and sharing data for genomic epidemiology and phylogeography, Microb. Genom, 10 199
2. Chewapreecha, C. et al. (2014) Comprehensive identification of single nucleotide polymorphisms associated with beta-lactam resistance within pneumococcal mosaic genes. PLoS Genet., 10, e1004547-e1004511
3. Croucher, N.J. et al. (2015) Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins. Nucleic Acids Res., 43, e15-e15
4. Croucher, N.J. et al. (2011) Rapid pneumococcal evolution in response to clinical interventions. Science, 331, 430-434
5. Lees, J.A. et al. (2016) Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes. Nat. Commun., 7, 12797
6. Marttinen, P. et al. (2011) Detection of recombination events in bacterial genomes from large population samples. Nucleic Acids Res., 40, e6-e6
7. Page, A.J et al. (2015) Roary: rapid large-scale prokaryote pan genome analysis Bioinformatics, 31, 3691-3693
8. Purcell, S. et al. (2007) PLINK: A tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet., 81, 559-575