News & Publications
LIONS: Analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq
Babaian A, Thompson IR, Lever J, Gagnier L, Karimi MM & Mager DL. LIONS: Analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq. Bioinformatics 35: 3839-3841, 2019.
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.
Source code, container, test data and instruction manual are freely available at www.github.com/ababaian/LIONS