Oviz-Bio

Oviz-Bio visualizes and explores cancer genomics data to provide interactive representations for analysis of mutations, copy number variations, structural variations, fusion transcripts, and oncovirus integrations.

Key Features:

• Interactive Visualization: Provides interactive, dynamic visualizations for exploration of genomic data including mutation annotations, copy number alterations, structural variants, and cohort landscapes.
• Diverse Visualization Types: Includes annotation and signature views for small-scale mutations; haplotype views and focal-cluster visualizations for copy number variations; split-read alignment and heatmap views for structural variations; transcript junction views for fusion genes; and genomic hotspot maps for oncovirus integrations.
• Multi-layered Data Exploration: Supports landscape views across sample cohorts enabling multi-layered, cross-sample visualization of genetic alterations.
• Implementation Framework: Built on the Oviz framework, implemented in TypeScript and runnable in browsers and NodeJS environments.

Scientific Applications:

• Mutation signature analysis: Visualizes and helps interpret mutation signatures and small-scale mutation annotations in cancer samples.
• Copy number variation analysis: Facilitates identification and visualization of haplotypes and focal clusters of copy number variations.
• Structural variant analysis: Visualizes split-read alignments and heatmaps to inspect structural variants.
• Fusion transcript characterization: Displays transcript junctions for characterization of fusion genes.
• Oncovirus integration mapping: Maps genomic hotspots of oncovirus integrations.
• Cohort-level landscape analysis: Aggregates multi-layered data across sample cohorts for cohort-level landscape analyses.

Methodology:

Describes graph structures using a domain-specific visualization language and is implemented on the Oviz framework in TypeScript, executed in browsers and NodeJS.