HiCEnterprise

HiCEnterprise identifies long-range chromosomal contacts from Hi-C experiments to characterize three-dimensional genome organization and its implications for gene regulation.

Key Features:

• Identification of Long-Range Contacts: Detects long-range contacts between chromatin regions in Hi-C data, spanning enhancer-promoter interactions to domain-domain associations across chromosomes.
• Statistical Analysis Framework: Implements four different statistical tests tailored for detecting significant chromosomal contacts and allows definition of regions or domains of interest.
• Versatile Analytical Approaches: Supports region-based and domain-based analyses to focus on specific genomic features or broader chromosomal territories.

Scientific Applications:

• Gene Regulation: Elucidates enhancer-promoter and other distal interactions to study mechanisms of gene expression regulation.
• Chromosomal Architecture: Characterizes interactions between distant domains to investigate higher-order chromatin structure.
• Disease Mechanisms: Enables investigation of aberrant chromosomal contacts associated with diseases, including cancer.

Methodology:

Processes Hi-C contact data using four statistical tests and performs region-based and domain-based significance analyses to identify long-range chromosomal contacts.