3DIV

3DIV provides visualization and analysis of three-dimensional genome organization using Hi-C and promoter capture Hi-C data to investigate chromatin interactions and the effects of structural variations in normal and cancer genomes.

Key Features:

• Extensive data collection: Approximately 230 billion raw Hi-C reads processed uniformly across 401 samples, including 220 cancer cell line/tumor Hi-C, 153 normal cell line/tissue Hi-C, and 28 promoter capture Hi-C datasets.
• Simulation of structural variation impacts: Computational modeling of how structural variations alter chromatin interactions and 3D genome architecture.
• Dynamic analysis of genomic rearrangements: Analytical capability to examine large-scale genomic rearrangement effects on 3D genome organization.
• Chromatin interaction visualization with annotations: Visualization of one-to-all chromatin interactions integrated with epigenetic annotations.
• Customizable Hi-C contact maps: Reconstruction of Hi-C contact maps by defining chromosome order to investigate complex genomic rearrangements.

Scientific Applications:

• Gene regulation studies: Analysis of how 3D genome organization and chromatin interactions influence gene regulation across biological contexts.
• Cancer research: Investigation of oncogenic gene expression and pathogenic 3D cancer genome features driven by large-scale genomic rearrangements.
• Genomic rearrangement analysis: Assessment of the effects of structural variations on chromatin interactions and their roles in disease progression.

Methodology:

Processes high-throughput Hi-C data uniformly to map chromatin interactions genome-wide, reconstructs Hi-C contact maps by defined chromosome order, and simulates the impacts of structural variations on contact maps.