RetroSeq: transposable element discovery from next-generation sequencing data | Zendy

Thomas Keane | Zendy; Kim Wong | Zendy; David J. Adams | Zendy

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RetroSeq: transposable element discovery from next-generation sequencing data

Author(s) -

Thomas Keane,

Kim Wong,

David J. Adams

Publication year - 2012

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/bts697

Subject(s) - transposable element , dna transposable elements , computer science , element (criminal law) , dna sequencing , computational biology , biology , genome , genetics , dna , gene , political science , law

A significant proportion of eukaryote genomes consist of transposable element (TE)-derived sequence. These elements are known to have the capacity to modulate gene function and genome evolution. We have developed RetroSeq for detecting non-reference TE insertions from Illumina paired-end whole-genome sequencing data. We evaluate RetroSeq on a human trio from the 1000 Genomes Project, showing that it produces highly accurate TE calls.

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