IDP-denovo: de novo transcriptome assembly and isoform annotation by hybrid sequencing | Zendy

Shuhua Fu | Zendy; Yingke Ma | Zendy; Hui Yao | Zendy; Zhichao Xu | Zendy; Shilin Chen | Zendy; Jingyuan Song | Zendy; Kin Fai Au | Zendy

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IDP-denovo: de novo transcriptome assembly and isoform annotation by hybrid sequencing

Author(s) -

Shuhua Fu,

Yingke Ma,

Hui Yao,

Zhichao Xu,

Shilin Chen,

Jingyuan Song,

Kin Fai Au

Publication year - 2018

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bty098

Subject(s) - annotation , transcriptome , computer science , de novo transcriptome assembly , computational biology , sequence assembly , focus (optics) , gene isoform , biology , gene , genetics , gene expression , artificial intelligence , physics , optics

In the past years, the long read (LR) sequencing technologies, such as Pacific Biosciences and Oxford Nanopore Technologies, have been demonstrated to substantially improve the quality of genome assembly and transcriptome characterization. Compared to the high cost of genome assembly by LR sequencing, it is more affordable to generate LRs for transcriptome characterization. That is, when informative transcriptome LR data are available without a high-quality genome, a method for de novo transcriptome assembly and annotation is of high demand.

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