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A Transcriptome Post-Scaffolding Method for Assembling High Quality Contigs
Joint Authors
Myles, Kevin M.
Liu, Mingming
Zhang, Liqing
Adelman, Zach N.
Source
Issue
Vol. 2014, Issue 2014 (31 Dec. 2014), pp.1-4, 4 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2014-05-28
Country of Publication
Egypt
No. of Pages
4
Main Subjects
Abstract EN
With the rapid development of high throughput sequencing technologies, new transcriptomes can be sequenced for little cost with high coverage.
Sequence assembly approaches have been modified to meet the requirements for de novo transcriptomes, which have complications not found in traditional genome assemblies such as variation in coverage for each candidate mRNA and alternative splicing.
As a consequence, de novo assembly strategies tend to generate a large number of redundant contigs due to sequence variations, which adversely affects downstream analysis and experiments.
In this work we proposed TransPS, a transcriptome post-scaffolding method, to generate high quality, nonredundant de novo transcriptomes.
TransPS shows promising results on the test transcriptome datasets, where redundancy is greatly reduced by more than 50% and, at the same time, coverage is improved considerably.
The web server and source code are available.
American Psychological Association (APA)
Liu, Mingming& Adelman, Zach N.& Myles, Kevin M.& Zhang, Liqing. 2014. A Transcriptome Post-Scaffolding Method for Assembling High Quality Contigs. Computational Biology Journal،Vol. 2014, no. 2014, pp.1-4.
https://search.emarefa.net/detail/BIM-511722
Modern Language Association (MLA)
Liu, Mingming…[et al.]. A Transcriptome Post-Scaffolding Method for Assembling High Quality Contigs. Computational Biology Journal No. 2014 (2014), pp.1-4.
https://search.emarefa.net/detail/BIM-511722
American Medical Association (AMA)
Liu, Mingming& Adelman, Zach N.& Myles, Kevin M.& Zhang, Liqing. A Transcriptome Post-Scaffolding Method for Assembling High Quality Contigs. Computational Biology Journal. 2014. Vol. 2014, no. 2014, pp.1-4.
https://search.emarefa.net/detail/BIM-511722
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-511722