De novo transcriptome assembly with ABySS
dc.contributor.author | Birol, I. | |
dc.contributor.author | Jackman, S. | |
dc.contributor.author | Nielsen, C. | |
dc.contributor.author | Qian, J. | |
dc.contributor.author | Varhol, Richard | |
dc.contributor.author | Stazyk, G. | |
dc.contributor.author | Morin, R. | |
dc.contributor.author | Zhao, Y. | |
dc.contributor.author | Hirst, M. | |
dc.contributor.author | Schein, J. | |
dc.contributor.author | Horsman, D. | |
dc.contributor.author | Connors, J. | |
dc.contributor.author | Gascoyne, R. | |
dc.contributor.author | Marra, M. | |
dc.contributor.author | Jones, S. | |
dc.date.accessioned | 2017-01-30T15:28:14Z | |
dc.date.available | 2017-01-30T15:28:14Z | |
dc.date.created | 2016-09-12T08:37:05Z | |
dc.date.issued | 2009 | |
dc.identifier.citation | Birol, I. and Jackman, S. and Nielsen, C. and Qian, J. and Varhol, R. and Stazyk, G. and Morin, R. et al. 2009. De novo transcriptome assembly with ABySS. Bioinformatics. 25 (21): pp. 2872-2877. | |
dc.identifier.uri | http://hdl.handle.net/20.500.11937/46618 | |
dc.identifier.doi | 10.1093/bioinformatics/btp367 | |
dc.description.abstract |
Motivation: Whole transcriptome shotgun sequencing data from non-normalized samples offer unique opportunities to study the metabolic states of organisms. One can deduce gene expression levels using sequence coverage as a surrogate, identify coding changes or discover novel isoforms or transcripts. Especially for discovery of novel events, de novo assembly of transcriptomes is desirable. Results: Transcriptome from tumor tissue of a patient with follicular lymphoma was sequenced with 36 base pair (bp) single- and paired-end reads on the Illumina Genome Analyzer II platform. We assembled ~194 million reads using ABySS into 66 921 contigs 100 bp or longer, with a maximum contig length of 10 951 bp, representing over 30 million base pairs of unique transcriptome sequence, or roughly 1% of the genome. © The Author 2009. Published by Oxford University Press. All rights reserved. | |
dc.publisher | Oxford University Press | |
dc.title | De novo transcriptome assembly with ABySS | |
dc.type | Journal Article | |
dcterms.source.volume | 25 | |
dcterms.source.number | 21 | |
dcterms.source.startPage | 2872 | |
dcterms.source.endPage | 2877 | |
dcterms.source.issn | 1367-4803 | |
dcterms.source.title | Bioinformatics | |
curtin.department | Department of Health Policy and Management | |
curtin.accessStatus | Open access via publisher |
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