The 3D Genome Browser 2.0: an enhanced online platform for visualizing and analyzing 3D genome architecture

Area of Science:

• Genomics
• Bioinformatics
• Computational Biology

Background:

• Understanding 3D genome architecture is crucial for gene regulation.
• Existing tools may lack comprehensive integration and user-friendly interfaces for 3D genomics data.

Purpose of the Study:

• To introduce the 3D Genome Browser 2.0, a major update to an online platform for 3D genome architecture exploration.
• To provide researchers with enhanced analytical features and an intuitive interface for diverse omics data integration.

Main Methods:

• Redesigned user interface (UI) for improved navigation and accessibility.
• Expanded data repository with over 700 curated 3D genome datasets (bulk and single-cell).
• Integration of novel analytical modules, including structural variation analysis.

Main Results:

• Substantial performance gains achieved through platform architecture rebuild.
• Enhanced data visualization and analysis capabilities for 3D genome data, including compartments, TADs, and loops.
• Facilitation of structural variation analysis and detection of enhancer-hijacking events.

Conclusions:

• The 3D Genome Browser 2.0 is a powerful, open-access resource for 3D genome research.
• The updated platform accelerates discovery by streamlining data analysis and integration.
• Improved UI and novel features empower researchers across diverse backgrounds.