nf-core circrna

nf-core circrna performs automated detection, quantification, annotation, miRNA target prediction from mature spliced circRNA sequences, and differential expression analysis of circular RNAs (circRNAs) from RNA sequencing data to support studies of circRNA regulation and function.

Key Features:

• CircRNA quantification and annotation: Quantifies circRNAs from RNA sequencing data and provides detailed annotation of identified circRNAs.
• miRNA target prediction: Predicts miRNA targets based on the mature spliced sequences of circRNAs to explore potential regulatory interactions.
• Differential expression analysis: Performs differential expression analysis to identify circRNAs with significant expression changes across conditions or tissue types.
• Nextflow implementation and containerisation: Implemented with Nextflow and distributed via containerisation to enable portable, scalable, and reproducible execution.

Scientific Applications:

• Stability and tissue-specific expression: Enables assessment of circRNA stability and tissue-specific expression patterns from RNA-seq data.
• Regulatory interaction discovery: Facilitates investigation of circRNA-mediated regulatory roles through predicted miRNA interactions.
• Disease mechanism and therapeutic target studies: Identifies differentially expressed circRNAs to support studies of disease mechanisms and potential therapeutic targets.

Methodology:

Implemented in Nextflow and distributed via containerisation to provide portability, scalability, and reproducibility across local, cluster, and cloud computing environments.