3D genome structure revealed by data-driven analysis -CustardPy, a new computational method for 3D genome analysis-

Ryuichiro Nakato
Toyonori Sakata
Jiankang Wang
Luis Augusto Eijy Nagai
Yuya Nagaoka
Gina Miku Oba
Masashige Bando
Katsuhiko Shirahige


◆We have developed CustardPy, a novel computational method for the integrative analysis of large-scale genomic data.
◆Using CustardPy, we have elucidated some aspects of the complex 3D genome structure and its functions, including the discovery of a specific 3D structure strongly associated with gene expression regulation.
◆ The results of this research will help elucidate the mechanism of several diseases caused by disruption of the 3D genome structure, including cancer.


(Go to the IQB Japanese Website)

Featured image


Journal: Nature Communications

Title: Context-dependent perturbations in chromatin folding and the transcriptome by cohesin and related factors

Author:Ryuichiro Nakato*, Toyonori Sakata, Jiankang Wang, Luis Augusto Eijy Nagai, Yuya Nagaoka, Gina Miku Oba, Masashige Bando and Katsuhiko Shirahige*

DOI: 10.1038/s41467-023-41316-4



Ryuichiro Nakato

Associate Professor, Institute for Quantitative Biosciences