LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq

• DOI: 10.1093/bioinformatics/btz130
• Publication Date: 2019-02-19T20:13:31Z
• Authors: Artem Babaian; I Richard Thompson; Jake Lever; Liane Gagnier; Mohammad M Karimi; Dixie L Mager
• Keywords: RNA-Seq; Transcription

Abstract Summary Transposable elements (TEs) influence the evolution of novel transcriptional networks yet specific and meaningful interpretation how TE-derived initiation contributes to transcriptome has been marred by computational methodological deficiencies. We developed LIONS for analysis RNA-seq data specifically detect quantify TE-initiated transcripts. Availability implementation Source code, container, test instruction manual are freely available at www.github.com/ababaian/LIONS. Supplementary information Bioinformatics online.