KISSa: a strategy to build multiple sequence alignments from pairwise comparisons of very closely related sequences

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dc.contributor.authorMarass, Francesco
dc.date.accessioned2015-07-06T22:36:09Z
dc.date.available2015-07-06T22:36:09Z
dc.date.copyright2009en_US
dc.date.issued2009-01-29
dc.description.abstractBackground: The volume of viral genomic sequence data continues to increase rapidly. This is especially true for the smaller RNA viruses, which are relatively easy to sequence in large numbers. The data volumes cause a number of significant problems for research applications that require large multiple alignments of essentially complete genomes, which are of the order of 10 kb. Findings: We present a simple strategy to enable the creation of large quasi-multiple sequence alignments from pairwise alignment data. This process is suitable for large, closely related sequences such as the polyproteins of dengue viruses, which need the insertion of very few indels. Conclusion: The quasi-multiple sequence alignments gene rated by KISSa are sufficiently accurate to support tree-based genome selection for interactive bioinformatics analysis tools. The speed of this process is critical to providing an interactive experience for the user.en_US
dc.description.reviewstatusRevieweden_US
dc.description.scholarlevelFacultyen_US
dc.description.sponsorshipThis work was supported by NIAID grant HHSN266200400036Cen_US
dc.identifier.citationMarass, F. and C. Upton BMC Research Notes 2009, 2 :91en_US
dc.identifier.urihttp://dx.doi.org/10.1186/1756-0500-2-91
dc.identifier.urihttp://hdl.handle.net/1828/6305
dc.language.isoenen_US
dc.publisherBMC Research Notesen_US
dc.rightsAttribution-NonCommercial-NoDerivs 2.5 Canada*
dc.rights.urihttp://creativecommons.org/licenses/by-nc-nd/2.5/ca/*
dc.titleKISSa: a strategy to build multiple sequence alignments from pairwise comparisons of very closely related sequencesen_US
dc.typeArticleen_US

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