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Published on: May 19, 2019
Firalink: A bioinformatics pipeline for long non-coding RNA data analysis.
Louis Chauviere1, Lucien Hoffbeck1, Muhammad Shoaib2
1From Firalis SA, Huningue, France.
The Firalink bioinformatics pipeline analyzes long non-coding RNA (lncRNA) data from targeted sequencing. It is adaptable for various panels and transcriptomics data, aiding research in cardiovascular and brain diseases.
Area of Science:
- Bioinformatics
- Genomics
- Molecular Biology
Background:
- Long non-coding RNAs (lncRNAs) play crucial roles in various diseases.
- Analyzing lncRNA expression requires specialized bioinformatics tools.
- Targeted sequencing offers a focused approach to studying specific lncRNAs.
Purpose of the Study:
- To introduce the Firalink bioinformatics pipeline for analyzing long non-coding RNA (lncRNA) data.
- To demonstrate the pipeline's utility with targeted sequencing panels.
- To highlight the pipeline's adaptability for diverse transcriptomic analyses.
Main Methods:
- Development of the Firalink bioinformatics pipeline using Nextflow, Python, and R scripts.
- Implementation on Linux operating systems.
- Validation using lncRNA panels for cardiovascular and brain diseases.
Main Results:
- The Firalink pipeline successfully analyzes lncRNA data from targeted sequencing.
- The pipeline was validated using specific lncRNA panels for cardiovascular and brain diseases.
- Firalink demonstrated adaptability to different reference genomes and transcriptomic data types.
Conclusions:
- Firalink is a versatile bioinformatics pipeline for lncRNA analysis.
- The pipeline supports targeted sequencing and whole transcriptome data.
- Firalink can be applied to various diseases by adapting the reference genome or panel.
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