epiTAD

epiTAD integrates chromosome conformation capture data with genomic annotations to visualize and compare three-dimensional genome organization at a genome-wide scale.

Key Features:

• 3D genome visualization: Integrates chromosome conformation capture data to represent genomic three-dimensional organization.
• Comparative genomic organization: Compares 3D genome architecture and genomic annotations across multiple public genomic databases.
• Genome-wide integration: Performs integrative, genome-wide analyses linking three-dimensional organization with genetic annotations.
• Data integration: Incorporates chromosome conformation capture data alongside diverse genomic annotations for joint analysis.
• In silico discovery support: Enables identification of candidate regulatory elements and generation of hypotheses about spatially mediated gene regulation and disease mechanisms.

Scientific Applications:

• Genetic epidemiology: Supports integrative analyses associating spatial genome architecture with genetic variants and disease risk.
• Gene regulation: Facilitates investigation of how three-dimensional genome organization influences gene expression.
• Disease mechanism investigation: Enables exploration of spatial relationships between regulatory elements and disease-associated loci.
• Regulatory element discovery: Aids identification of potential regulatory elements through co-localization of 3D contacts and annotations.

Methodology:

Leverages public genomic databases and chromosome conformation capture data to integrate three-dimensional genome structure with genetic annotations for comparative, genome-wide analyses.