CircNetVis

CircNetVis visualizes circular RNA (circRNA) interaction networks to enable exploration of circRNA interactions with microRNAs, mRNAs, and RNA binding proteins.

Key Features:

• Implementation: Implemented in R-shiny as the computational framework.
• Input formats: Accepts circRNA identifiers from CircBase, genomic coordinates (chromosome, start, end), and circRNA sequences in FASTA format.
• Interaction networks: Integrates interaction data to represent relationships between circRNAs and microRNAs, mRNAs, and RNA binding proteins.
• Analysis of novel circRNAs: Supports analysis of circRNAs not reported in previous databases.
• Visualization and export: Produces interactive visualizations and enables export of result files for downstream analysis.

Scientific Applications:

• Network analysis of circRNA regulation: Facilitates investigation of potential regulatory mechanisms mediated by circRNA interactions with microRNAs, mRNAs, and RNA binding proteins.
• Characterization of novel circRNAs: Enables examination of interaction partners and potential functional roles of circRNAs absent from existing databases.

Methodology:

Implemented in R-shiny and integrates diverse interaction networks while accepting CircBase IDs, genomic coordinates (chromosome, start, end), and circRNA sequences in FASTA format.