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GrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogens

2018-09Journal article Restricted access
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dc.contributor.authorZhou, Zhemin
dc.contributor.authorAlikhan, Nabil-Fareed
dc.contributor.authorSergeant, Martin
dc.contributor.authorLuhmann, Nina
dc.contributor.authorVaz, Cátia
dc.contributor.authorFrancisco, Alexandre
dc.contributor.authorCarrico, Joao
dc.contributor.authorAchtman, Mark
dc.date.accessioned2018-11-28T11:56:44Z
dc.date.available2018-11-28T11:56:44Z
dc.date.issued2018-09
dc.description.abstractCurrent methods struggle to reconstruct and visualize the genomic relationships of large numbers of bacterial genomes. GrapeTree facilitates the analyses of large numbers of allelic profiles by a static "GrapeTree Layout" algorithm that supports interactive visualizations of large trees within a web browser window. GrapeTree also implements a novel minimum spanning tree algorithm (MSTree V2) to reconstruct genetic relationships despite high levels of missing data. GrapeTree is a stand-alone package for investigating phylogenetic trees plus associated metadata and is also integrated into EnteroBase to facilitate cutting edge navigation of genomic relationships among bacterial pathogens.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationZHEMIN, Zhou; [et al] – GrapeTree visualization of core genomic relationships among 100,000 bacterial pathogens. Genome Research. ISSN 1088-9051. Vol. 28, N.º 9 (2018), pp. 1395-1404pt_PT
dc.identifier.doi10.1101/gr.232397.117pt_PT
dc.identifier.issn1088-9051
dc.identifier.issn1549-5469
dc.identifier.urihttp://hdl.handle.net/10400.21/9099
dc.language.isoengpt_PT
dc.peerreviewedyespt_PT
dc.publisherCold Spring Harbor Laboratory Presspt_PT
dc.relation202792/Z/16/Z - Wellcome Trustpt_PT
dc.relationTUBITAK/0004/2014 - BacGenTrack ([FCT/Scientific and Technological Research Council of Turkey [Turkiye Bilimsel ve Teknolojik Ara srrma Kurumu, Tubitak])pt_PT
dc.relation.publisherversionhttps://genome.cshlp.org/content/early/2018/07/26/gr.232397.117.full.pdfpt_PT
dc.subjectBacterial genomept_PT
dc.subjectGrapeTreept_PT
dc.subjectGenoma bacterianopt_PT
dc.titleGrapeTree: visualization of core genomic relationships among 100,000 bacterial pathogenspt_PT
dc.typejournal article
dspace.entity.typePublication
oaire.citation.endPage1404pt_PT
oaire.citation.issue9pt_PT
oaire.citation.startPage1395pt_PT
oaire.citation.titleGenome Researchpt_PT
oaire.citation.volume28pt_PT
person.familyNameZhou
person.familyNameAlikhan
person.familyNameSergeant
person.familyNameLuhmann
person.familyNameVaz
person.familyNameFrancisco
person.familyNameCarrico
person.familyNameAchtman
person.givenNameZhemin
person.givenNameNabil-Fareed
person.givenNameMartin
person.givenNameNina
person.givenNameCátia
person.givenNameAlexandre
person.givenNameJoao
person.givenNameMark
person.identifier.ciencia-id8718-741E-BBD9
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person.identifier.orcid0000-0002-1243-0767
person.identifier.orcid0000-0001-7264-2668
person.identifier.orcid0000-0001-8112-7027
person.identifier.orcid0000-0001-6074-3074
person.identifier.orcid0000-0003-4852-1641
person.identifier.orcid0000-0002-5274-2722
person.identifier.orcid0000-0001-6815-0070
person.identifier.ridB-7824-2017
person.identifier.ridADC-1473-2022
person.identifier.ridA-7367-2008
person.identifier.scopus-author-id6504136193
person.identifier.scopus-author-id6602649951
person.identifier.scopus-author-id27267941600
person.identifier.scopus-author-id8266333200
rcaap.rightsopenAccesspt_PT
rcaap.typearticlept_PT
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