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dc.contributor.authorWood, Graham R.
dc.contributor.authorRyabov, Eugene V.
dc.contributor.authorFannon, Jessica M.
dc.contributor.authorMoore, Jonathan D.
dc.contributor.authorEvans, David J.
dc.contributor.authorBurroughs, Nigel
dc.date.accessioned2015-09-16T16:10:05Z
dc.date.available2015-09-16T16:10:05Z
dc.date.issued2014-09-15
dc.identifier211241282
dc.identifier11d990d1-a054-409e-b875-20e95b10d566
dc.identifier000344647700001
dc.identifier84903449881
dc.identifier.citationWood , G R , Ryabov , E V , Fannon , J M , Moore , J D , Evans , D J & Burroughs , N 2014 , ' MosaicSolver : a tool for determining recombinants of viral genomes from pileup data ' , Nucleic Acids Research , vol. 42 , no. 16 , e123 . https://doi.org/10.1093/nar/gku524en
dc.identifier.issn0305-1048
dc.identifier.otherORCID: /0000-0002-1315-4258/work/104252559
dc.identifier.urihttps://hdl.handle.net/10023/7493
dc.description.abstractViral recombination is a key evolutionary mechanism, aiding escape from host immunity, contributing to changes in tropism and possibly assisting transmission across species barriers. The ability to determine whether recombination has occurred and to locate associated specific recombination junctions is thus of major importance in understanding emerging diseases and pathogenesis. This paper describes a method for determining recombinant mosaics (and their proportions) originating from two parent genomes, using high-throughput sequence data. The method involves setting the problem geometrically and the use of appropriately constrained quadratic programming. Recombinants of the honeybee deformed wing virus and the Varroa destructor virus-1 are inferred to illustrate the method from both siRNAs and reads sampling the viral genome population (cDNA library); our results are confirmed experimentally. Matlab software (MosaicSolver) is available.
dc.format.extent14
dc.format.extent1652376
dc.language.isoeng
dc.relation.ispartofNucleic Acids Researchen
dc.subjectDeformed-wing-virusen
dc.subjectApis-mellifera l.en
dc.subjectMite varroa-destructoren
dc.subjectRNA virusesen
dc.subjectHoney-beeen
dc.subjectQH301 Biologyen
dc.subject.lccQH301en
dc.titleMosaicSolver : a tool for determining recombinants of viral genomes from pileup dataen
dc.typeJournal articleen
dc.contributor.institutionUniversity of St Andrews. School of Biologyen
dc.contributor.institutionUniversity of St Andrews. Biomedical Sciences Research Complexen
dc.identifier.doi10.1093/nar/gku524
dc.description.statusPeer revieweden


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