FGviewer

FGviewer visualizes functional features of human fusion genes across DNA, RNA, protein, and pathogenic levels to elucidate their molecular and clinical consequences.

Key Features:

• Multi-level annotations: Annotates fusion genes at four distinct levels—DNA, RNA, protein, and pathogenic.
• Breakpoint visualization: Highlights breakpoints within gene bodies across molecular levels and distinguishes involvement of specific functional zones.
• Fusion sequence reconstruction: Derives fusion mRNA and amino acid sequences from user-defined breakpoint coordinates.
• Regulatory element mapping: Identifies swapped transcription factor binding sites and miRNA binding sites that can alter gene expression regulation.
• Protein feature annotation: Reports protein domains, protein–protein interactions, binding sites for various molecules, and secondary structure features.
• Clinical variant integration: Incorporates clinically relevant variants to provide insights into pathogenic implications of fusion genes.

Scientific Applications:

• Cancer research: Visualizes and annotates tumorigenic fusion genes to assess how retention or loss of functional or regulatory domains can drive tumorigenesis.
• Therapeutic target prioritization: Highlights functional and regulatory changes in fusion genes to support prioritization of therapeutic targets.
• Disease mechanism elucidation: Integrates molecular and clinical annotations to aid interpretation of how fusion genes contribute to disease mechanisms.

Methodology:

Accepts fusion gene symbols, breakpoint coordinates, or structural variants derived from whole-genome sequence (WGS) data and derives fusion mRNA and amino acid sequences and annotations at DNA, RNA, protein, and pathogenic levels.