The Genomic HyperBrowser

The Genomic HyperBrowser performs statistical analysis of pairwise relations between sequence-level genomic tracks and formalizes genomic feature representations to support investigation of gene regulation, disease associations, and epigenetic modifications.

Key Features:

• Statistical methodology: Implements a first-principled statistical framework to analyze pairwise relations between genomic tracks represented as mathematical objects along the genome.
• Customizable components: Provides configurable components for processing and statistical analysis of genomic track data to support diverse investigations.
• Interoperability and formats: Supports BioXSD 1.1 (an improved XML format) and GTrack 1.0 (a tabular format) and delineates fifteen generic track types to capture gaps, lengths, values, and interconnections of genomic features.

Scientific Applications:

• Gene regulation analysis: Enables investigation of regulatory mechanisms by comparing and statistically testing relations between genomic tracks.
• Disease association studies: Supports genomic-level investigation of disease associations through pairwise track analyses.
• Epigenetic modification mapping: Facilitates study of epigenetic modifications by representing and comparing track values and lengths across the genome.
• Large-scale dataset integration: Applies to large-scale datasets such as ENCODE and Roadmap Epigenomics for systematic genomic inquiries.

Methodology:

Implements first-principled statistical analysis of pairwise relations between genomic tracks represented as mathematical objects, uses fifteen generic track types based on core informational properties, and employs BioXSD 1.1 and GTrack 1.0 formats for feature representation.