A low-latency, big database system and browser for storage, querying and visualization of 3D genomic data

Area of Science:

• Genomics
• Bioinformatics
• Computational Biology

Background:

• Three-dimensional (3D) genome structures offer transformative potential for understanding genomic functions.
• Current data storage and visualization tools limit efficient access to complex 3D genome data for the scientific community.

Purpose of the Study:

• To develop and introduce a novel database system (3DBG) for storing and querying 3D genomic data.
• To present a 3D genome browser (3DGB) for visualizing and exploring 3D genome structures.
• To enhance accessibility and usability of 3D genome data for researchers.

Main Methods:

• Development of a database system (3DBG) optimized for 3D genomic data.
• Implementation of a web-based 3D genome browser (3DGB) for interactive visualization.
• Benchmarking of the 3DBG system against existing state-of-the-art solutions.

Main Results:

• The 3DBG system demonstrates superior speed compared to previous solutions for storing and querying 3D genomic data.
• The 3DBG system exhibits excellent scalability with increasing data volumes.
• The 3DGB provides a useful tool for exploring complex human genome 3D structures.

Conclusions:

• The integrated 3DBG and 3DGB system significantly improves the efficiency of accessing and analyzing 3D genome data.
• These tools address the critical need for advanced data management and visualization in 3D genomics.
• The developed resources facilitate deeper insights into genome organization and function.