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Dynamic phylogenetic inference for sequence-based typing data

2017-08Conference object Open access
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dc.contributor.authorFrancisco, Alexandre P.
dc.contributor.authorNascimento, Marta
dc.contributor.authorVaz, Cátia
dc.date.accessioned2021-05-10T11:23:54Z
dc.date.available2021-05-10T11:23:54Z
dc.date.issued2017-08
dc.description.abstractTyping methods are widely used in the surveillance of infectious diseases, outbreaks investigation and studies of the natural history of an infection. And their use is becoming standard, in particular with the introduction of High Throughput Sequencing (HTS). On the other hand, the data being generated is massive and many algorithms have been proposed for phylogenetic analysis of typing data, such as the goeBURST algorithm. These algorithms must however be run whenever new data becomes available starting from scratch. We address this issue proposing a dynamic version of goeBURST algorithm. Experimental results show that this new version is efficient on integrating new data and updating inferred evolutionary patterns, improving the update running time by at least one order of magnitude.pt_PT
dc.description.versioninfo:eu-repo/semantics/publishedVersionpt_PT
dc.identifier.citationFRANCISCO, Alexandre P.; NASCIMENTO, Marta; VAZ, Cátia – Dynamic phylogenetic inference for sequence-based typing data. In ACM-BCB '17: Proceedings of the 8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informatics. Boston, MA, USA: ACM Digital Library, 2017. ISBN 978-1-4503-4722-8. Pp. 604pt_PT
dc.identifier.doi10.1145/3107411.3108214pt_PT
dc.identifier.isbn978-1-4503-4722-8
dc.identifier.urihttp://hdl.handle.net/10400.21/13316
dc.language.isoengpt_PT
dc.publisherACM Digital Librarypt_PT
dc.relationTUBITACK/0004/2014 - under projects BacGenTrackpt_PT
dc.relationSAICTPAC/0021/2015 - PRECISEpt_PT
dc.relationUID/CEC/500021/2013 - FCTpt_PT
dc.relation.publisherversionhttps://dl.acm.org/doi/pdf/10.1145/3107411.3108214pt_PT
dc.subjectPhylogenetic inferencept_PT
dc.subjectPhylogenetic treespt_PT
dc.subjectDynamic algorithmspt_PT
dc.subjectSequence-based typing datapt_PT
dc.titleDynamic phylogenetic inference for sequence-based typing datapt_PT
dc.typeconference object
dspace.entity.typePublication
oaire.citation.conferencePlaceAugust 20–23, 2017 - Boston, MA, USApt_PT
oaire.citation.endPage604pt_PT
oaire.citation.startPage604pt_PT
oaire.citation.title8th ACM International Conference on Bioinformatics, Computational Biology,and Health Informaticspt_PT
person.familyNameVaz
person.givenNameCátia
person.identifier.ciencia-id8718-741E-BBD9
person.identifier.orcid0000-0001-6074-3074
person.identifier.ridADC-1473-2022
person.identifier.scopus-author-id27267941600
rcaap.rightsopenAccesspt_PT
rcaap.typeconferenceObjectpt_PT
relation.isAuthorOfPublication0c5cb0fd-7cd7-4a16-86a8-7a68188e53ff
relation.isAuthorOfPublication.latestForDiscovery0c5cb0fd-7cd7-4a16-86a8-7a68188e53ff

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