Abstract
Transposable Elements (TEs), which comprise almost half of the human genome, can contribute to the evolution of novel transcriptional circuitry. Specific and biologically meaningful interpretation of TE-initiated transcripts has been marred by computational and methodological deficiencies. We developed the software suite LIONS (www.github.com/ababaian/LIONS) to analyze paired-end RNAseq data for detecting and quantifying significant TE-contributions to a transcriptome. The LIONS suite serves as a platform for TE RNA-seq analysis and can be applied to a broad set of data sets for the study of development, stress treatments, aging and cancer.
List of Abbreviations
- CAGE
- Cap Analysis Gene Expression
- ERV
- Endogenous Retrovirus
- LTR
- Long Terminal Repeat
- TE
- Transposable Elements
- TSS
- Transcription Start Site
Copyright
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.