CIRI-vis

CIRI-vis visualizes and quantifies circular RNAs (circRNAs) to explore circRNA splicing patterns and isoform abundance.

Key Features:

• Visualization of Alignments: Integrates alignments and junctions of circular transcripts to display internal circRNA structures.
• Isoform Abundance Estimation: Estimates abundance of circRNA isoforms from merged reads arising from back-splicing junction (BSJ) and read overlap (RO) events.
• Transcriptome Comparison: Enables comparative analysis of circRNA transcriptomes across multiple samples.

Scientific Applications:

• Structural characterization: Visualizing complex circRNA splicing and internal composition to resolve isoform structures.
• Regulatory mechanism analysis: Supporting studies of regulation in circRNA biogenesis and alternative splicing.
• Disease association and biomarker discovery: Enabling investigation of circRNA involvement in diseases and assessment of circRNAs as biomarkers or therapeutic targets.

Methodology:

CIRI-vis processes outputs from CIRI-full or CIRI-AS, integrates alignments and junction information, and estimates isoform abundance from merged reads (back-splicing junction [BSJ] and read overlap [RO] events) for visualization of circRNA splicing patterns and isoform dynamics.