TransBorrow: genome-guided transcriptome assembly by borrowing assemblies from different assemblers.

Ting Yu, Zengchao Mu, Zhaoyuan Fang, Xiaoping Liu, Xin Gao, Juntao Liu

Research output: Contribution to journalArticlepeer-review

Abstract

RNA-seq technology is widely used in various transcriptomic studies and provides great opportunities to reveal the complex structures of transcriptomes. To effectively analyze RNA-seq data, we introduce a novel transcriptome assembler, TransBorrow, which borrows the assemblies from different assemblers to search for reliable subsequences by building a colored graph from those borrowed assemblies. Then, by seeding reliable subsequences, a newly designed path extension strategy accurately searches for a transcript-representing path cover over each splicing graph. TransBorrow was tested on both simulated and real data sets and showed great superiority over all the compared leading assemblers.
Original languageEnglish (US)
JournalGenome research
DOIs
StatePublished - Aug 21 2020

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