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- Title
LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq.
- Authors
Babaian, Artem; Thompson, I Richard; Lever, Jake; Gagnier, Liane; Karimi, Mohammad M; Mager, Dixie L
- Abstract
Summary Transposable elements (TEs) influence the evolution of novel transcriptional networks yet the specific and meaningful interpretation of how TE-derived transcriptional initiation contributes to the transcriptome has been marred by computational and methodological deficiencies. We developed LIONS for the analysis of RNA-seq data to specifically detect and quantify TE-initiated transcripts. Availability and implementation Source code, container, test data and instruction manual are freely available at www.github.com/ababaian/LIONS. Supplementary information Supplementary data are available at Bioinformatics online.
- Subjects
GENE regulatory networks; SOURCE code; HOTEL suites; TRANSGENIC organisms; DATA analysis
- Publication
Bioinformatics, 2019, Vol 35, Issue 19, p3839
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/btz130