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dc.contributor.authorDavidson, NM
dc.contributor.authorHawkins, ADK
dc.contributor.authorOshlack, A
dc.date.accessioned2020-12-21T02:19:49Z
dc.date.available2020-12-21T02:19:49Z
dc.date.issued2017-08-04
dc.identifierpii: 10.1186/s13059-017-1284-1
dc.identifier.citationDavidson, N. M., Hawkins, A. D. K. & Oshlack, A. (2017). SuperTranscripts: a data driven reference for analysis and visualisation of transcriptomes. GENOME BIOLOGY, 18 (1), https://doi.org/10.1186/s13059-017-1284-1.
dc.identifier.issn1474-760X
dc.identifier.urihttp://hdl.handle.net/11343/256880
dc.description.abstractNumerous methods have been developed to analyse RNA sequencing (RNA-seq) data, but most rely on the availability of a reference genome, making them unsuitable for non-model organisms. Here we present superTranscripts, a substitute for a reference genome, where each gene with multiple transcripts is represented by a single sequence. The Lace software is provided to construct superTranscripts from any set of transcripts, including de novo assemblies. We demonstrate how superTranscripts enable visualisation, variant detection and differential isoform detection in non-model organisms. We further use Lace to combine reference and assembled transcriptomes for chicken and recover hundreds of gaps in the reference genome.
dc.languageEnglish
dc.publisherBIOMED CENTRAL LTD
dc.rights.urihttps://creativecommons.org/licenses/by/4.0
dc.titleSuperTranscripts: a data driven reference for analysis and visualisation of transcriptomes
dc.typeJournal Article
dc.identifier.doi10.1186/s13059-017-1284-1
melbourne.affiliation.departmentSchool of BioSciences
melbourne.affiliation.departmentSchool of Physics
melbourne.source.titleGenome Biology
melbourne.source.volume18
melbourne.source.issue1
dc.rights.licenseCC BY
melbourne.elementsid1230278
melbourne.contributor.authorDavidson, Nadia
melbourne.contributor.authorOshlack, Alicia
dc.identifier.eissn1474-760X
melbourne.accessrightsOpen Access


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