Development of the PHi-C database to support the understanding and visualization of 4D genome states
Category
- In progress
- Database Integration Coordination Program (DICP)
- Projects funded in FY 2025-Fostering
Name and affiliation of Research Director
SHINKAI Soya
Senior Scientist, Center for Biosystems Dynamics Research, RIKEN
Outline of R&D
Using an originally developed analysis method (PHi-C), a "PHi-C database" will be constructed to comprehensively analyze and visualize the dynamic 3D genome structure (4D genome state) for public 3D genome structure data (Hi-C data). The PHi-C database will be built using GPU servers to accelerate and scale up PHi-C computations and achieve an integrated visualization platform for 4D genome information, allowing users to intuitively compare and understand multiple Hi-C data sets. With this database, the project aims to provide dynamic higher-order structural information of genomic DNA in the nucleus, which is essential for elucidating life phenomena in eukaryotes, and to contribute to new hypothesis generation and knowledge discovery through simulations, theoretical analysis, and integrated genome analysis.
Main database(s) subject to research and development
PHi-C database
(Under construction)
Period of research and development
Apr 2025 to Mar 2028
Grant Number
JPMJND2502
